{"id":1776,"date":"2017-11-29T21:10:13","date_gmt":"2017-11-30T03:10:13","guid":{"rendered":"http:\/\/astrobotany.com\/?page_id=1776"},"modified":"2023-09-14T22:48:47","modified_gmt":"2023-09-15T03:48:47","slug":"molecular-biology-resources","status":"publish","type":"page","link":"https:\/\/astrobotany.com\/molecular-biology-resources\/","title":{"rendered":"Molecular Biology Resources"},"content":{"rendered":"\t\t<div data-elementor-type=\"wp-page\" data-elementor-id=\"1776\" class=\"elementor elementor-1776\" data-elementor-post-type=\"page\">\n\t\t\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-745c93c elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"745c93c\" data-element_type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-387985b\" data-id=\"387985b\" data-element_type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-9185a21 elementor-widget elementor-widget-heading\" data-id=\"9185a21\" data-element_type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h2 class=\"elementor-heading-title elementor-size-default\">Molecular Biology Resources<\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-ed9ce16 elementor-widget elementor-widget-heading\" data-id=\"ed9ce16\" data-element_type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h2 class=\"elementor-heading-title elementor-size-default\">This page contains resources for molecular biology and\/or other wet lab work. It also contains some supplemental resources for classroom development. <\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-51f9d89 elementor-widget-divider--view-line elementor-widget elementor-widget-divider\" data-id=\"51f9d89\" data-element_type=\"widget\" data-widget_type=\"divider.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"elementor-divider\">\n\t\t\t<span class=\"elementor-divider-separator\">\n\t\t\t\t\t\t<\/span>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<section class=\"elementor-section elementor-top-section elementor-element elementor-element-19a1c183 elementor-section-boxed elementor-section-height-default elementor-section-height-default\" data-id=\"19a1c183\" data-element_type=\"section\">\n\t\t\t\t\t\t<div class=\"elementor-container elementor-column-gap-default\">\n\t\t\t\t\t<div class=\"elementor-column elementor-col-100 elementor-top-column elementor-element elementor-element-ed6d940\" data-id=\"ed6d940\" data-element_type=\"column\">\n\t\t\t<div class=\"elementor-widget-wrap elementor-element-populated\">\n\t\t\t\t\t\t<div class=\"elementor-element elementor-element-6ab8cfcc elementor-widget elementor-widget-text-editor\" data-id=\"6ab8cfcc\" data-element_type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<table cellspacing=\"0\" cellpadding=\"0\"><tbody><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Create polls that you can do during class<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/pollev.com\/\"><u>https:\/\/pollev.com\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">A great place to store protocols<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/www.protocols.io\/\"><u>https:\/\/www.protocols.io<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Mistakes to avoid when presenting data<\/b><\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/www.biostat.wisc.edu\/~kbroman\/topten_worstgraphs\/\"><u>https:\/\/www.biostat.wisc.edu\/~kbroman\/topten_worstgraphs\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Planning to save meta-data<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Make a cloud datastore where you can share your results with educators<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.iplantcollaborative.org\/\"><u>http:\/\/www.iplantcollaborative.org\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">New Tutorial on RNAseq analysis pipeline in CyVerse<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/wiki.cyverse.org\/wiki\/display\/TUT\/RNA-seq+Tutorial-+HISAT2%2C+StringTie+and+Ballgown\"><u>https:\/\/wiki.cyverse.org\/wiki\/display\/TUT\/RNA-seq+Tutorial-+HISAT2%2C+StringTie+and+Ballgown<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Data carpentry folder structure<\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Intro to BRIC19 RNAseq experiment<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.rnaseqforthenextgeneration.org\/profiles\/barker.html\"><u>http:\/\/www.rnaseqforthenextgeneration.org\/profiles\/barker.html<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">DNA subway Green Line (Preprocessing to counts )<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/dnasubway.cyverse.org\/\"><u>https:\/\/dnasubway.cyverse.org\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Provide counts table<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Counts from BRIC19 on MacMini desktop (down load link from CyVerse)<\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Volcano plots require Log FC & -Log10 P-value<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/moderndata.plot.ly\/interactive-volcano-plots-r-plotly\/\"><u>http:\/\/moderndata.plot.ly\/interactive-volcano-plots-r-plotly\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Transcriptome<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">RNAseq normaliation tool DESeq, EdgeR, Voom<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/gallery.shinyapps.io\/DEApp\/\"><u>https:\/\/gallery.shinyapps.io\/DEApp\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">RNAseq heat map and PCA tool<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/kcvi.shinyapps.io\/START\/\"><u>https:\/\/kcvi.shinyapps.io\/START\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Instructions for build your own heatmaps<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www2.warwick.ac.uk\/fac\/sci\/moac\/people\/students\/peter_cock\/r\/heatmap\/\"><u>http:\/\/www2.warwick.ac.uk\/fac\/sci\/moac\/people\/students\/peter_cock\/r\/heatmap\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Deposit figures in slide show<\/b><\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Find method to save lists of genes and meta data for report<\/b><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Copmare and contrast datasets<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Shiny Venn diagram<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/jvenn.toulouse.inra.fr\/app\/example.html\"><u>http:\/\/jvenn.toulouse.inra.fr\/app\/example.html<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Multi-gene<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Go analysis tool<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/plantregmap.cbi.pku.edu.cn\/go.php\"><u>http:\/\/plantregmap.cbi.pku.edu.cn\/go.php<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Alternative Go Analysis tool<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/bioinfo.cau.edu.cn\/agriGO\/analysis.php\"><u>http:\/\/bioinfo.cau.edu.cn\/agriGO\/analysis.php<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Gene network analysis tool<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/knetminer.rothamsted.ac.uk\/Arabidopsis_thaliana\/\"><u>http:\/\/knetminer.rothamsted.ac.uk\/Arabidopsis_thaliana\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Compare your lists to the transcriptionfactor data bases<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/atrm.cbi.pku.edu.cn\/\"><u>http:\/\/atrm.cbi.pku.edu.cn\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Search for co-expression paterns using BAR<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/bar.utoronto.ca\/ExpressionAngler\/\"><u>http:\/\/bar.utoronto.ca\/ExpressionAngler\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Plot the diurnal expression patterns in different light environments<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/diurnal.mocklerlab.org\/diurnal_data_finders\/new\"><u>http:\/\/diurnal.mocklerlab.org\/diurnal_data_finders\/new<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">SUBA tool box (co-expression, subcellular location enrichment)<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/suba.live\/toolbox-app.html\"><u>http:\/\/suba.live\/toolbox-app.html<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Single gene<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Use this tool to investigate the most interesting gene<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/apps.araport.org\/thalemine\/begin.do\"><u>https:\/\/apps.araport.org\/thalemine\/begin.do<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Use this to make a graphical report on interesting gene expressoin patterns<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/bar.utoronto.ca\/eplant\/\"><u>https:\/\/bar.utoronto.ca\/eplant\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Observe phylogenetic tree of gene<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/plants.ensembl.org\/Arabidopsis_thaliana\/Gene\/Compara_Tree?g=AT4G39670;r=4:18409846-18411069;t=AT4G39670.1\"><u>http:\/\/plants.ensembl.org\/Arabidopsis_thaliana\/Gene\/Compara_Tree?g=AT4G39670;r=4:18409846-18411069;t=AT4G39670.1<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Explore a single gene<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.megabionet.org\/atpid\/webfile\/query.php\"><u>http:\/\/www.megabionet.org\/atpid\/webfile\/query.php<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Check if your gene is found in the plant membrane protein database<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/aramemnon.uni-koeln.de\/request.ep\"><u>http:\/\/aramemnon.uni-koeln.de\/request.ep<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>FASTA file format<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Check if ther protein contains any transmembrane domains<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.cbs.dtu.dk\/services\/TMHMM-2.0\/\"><u>http:\/\/www.cbs.dtu.dk\/services\/TMHMM-2.0\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Design experiment to test hypothesis<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Plant image anlysis software<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/plant-image-analysis.org\/\"><u>http:\/\/plant-image-analysis.org\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">FlashLapse as a tool for acquiring consitant image quality<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/github.com\/flashlapsedev\/Flashlapse_Build\"><u>https:\/\/github.com\/flashlapsedev\/Flashlapse_Build<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Protocols Astrobotany.com and Trello<\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Tools for quick graph production<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Shiny Box Plot<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/shiny.chemgrid.org\/boxplotr\/\"><u>http:\/\/shiny.chemgrid.org\/boxplotr\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Shiny GGPlot graph production<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/site.shinyserver.dck.gmw.rug.nl\/ggplotgui\/\"><u>https:\/\/site.shinyserver.dck.gmw.rug.nl\/ggplotgui\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Shiny for RootNav<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/rmtrane.shinyapps.io\/RootNav\/\"><u>https:\/\/rmtrane.shinyapps.io\/RootNav\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Shiny for RootTace<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/rmtrane.shinyapps.io\/RootTrace\/\"><u>https:\/\/rmtrane.shinyapps.io\/RootTrace\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Online statiscal tool with guide<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/vassarstats.net\/\"><u>http:\/\/vassarstats.net\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Alternative Shiny Onlines statiscal tool<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.intro-stats.com\/\"><u>http:\/\/www.intro-stats.com\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Online histograms and related stats<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/www.wessa.net\/rwasp_histogram.wasp\"><u>https:\/\/www.wessa.net\/rwasp_histogram.wasp<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Online interactive figure creation<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/plot.ly\/~PlotBot\/51\/control-vs-experimental\/\"><u>https:\/\/plot.ly\/~PlotBot\/51\/control-vs-experimental\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>Eric’s root analysis pipeline<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">J-filament software for measuring roots \/ wavy lines<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/athena.physics.lehigh.edu\/jfilament\/download.chy#current\"><u>http:\/\/athena.physics.lehigh.edu\/jfilament\/download.chy#current<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Custom R-codes for analyzing roots \/ wavy lines<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/github.com\/eschultzphd\/RootMeasurement\/blob\/master\/RootMeasure.R\"><u>https:\/\/github.com\/eschultzphd\/RootMeasurement\/blob\/master\/RootMeasure.R<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\">\u00a0<\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><b>New image analysis pipeline<\/b><\/span><\/td><td valign=\"bottom\">\u00a0<\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Root NAV & Other plant image analysis software<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.plant-image-analysis.org\/api\"><u>http:\/\/www.plant-image-analysis.org\/api<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">The language of RSA = RSML<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/rootsystemml.github.io\/tools\/\"><u>http:\/\/rootsystemml.github.io\/tools\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">This software can make example roots to train other software<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/www.biorxiv.org\/content\/early\/2016\/12\/22\/074922\"><u>https:\/\/www.biorxiv.org\/content\/early\/2016\/12\/22\/074922<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Deposit of ground truth synethetic images<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"http:\/\/www.plant-image-analysis.org\/dataset\/modelled-root-images\"><u>http:\/\/www.plant-image-analysis.org\/dataset\/modelled-root-images<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Archi-DART: New R-Shiny app for root modeling \/ making graphs<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/archidart.github.io\/\"><u>https:\/\/archidart.github.io\/<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">PRIMAL machine learning<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/github.com\/plantmodelling\/primal\"><u>https:\/\/github.com\/plantmodelling\/primal<\/u><u><\/u><\/a><\/span><\/td><\/tr><tr><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\">Root image analysis pipeline evaluation<\/span><\/td><td valign=\"bottom\"><span style=\"color: #ffffff; font-family: Arial; font-size: large;\"><a style=\"color: #ffffff;\" href=\"https:\/\/github.com\/guillaumelobet\/Root-Image-Analysis-Pipeline-Evaluation\/tree\/v0.1\"><u>https:\/\/github.com\/guillaumelobet\/Root-Image-Analysis-Pipeline-Evaluation\/tree\/v0.1<\/u><u><\/u><\/a><\/span><\/td><\/tr><\/tbody><\/table>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-037aa87 elementor-widget-divider--view-line elementor-widget elementor-widget-divider\" data-id=\"037aa87\" data-element_type=\"widget\" data-widget_type=\"divider.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"elementor-divider\">\n\t\t\t<span class=\"elementor-divider-separator\">\n\t\t\t\t\t\t<\/span>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<\/div>\n\t\t","protected":false},"excerpt":{"rendered":"<p>Molecular Biology Resources This page contains resources for molecular biology and\/or other wet lab work. It also contains some supplemental resources for classroom development. Create polls that you can do during class https:\/\/pollev.com\/ A great place to store protocols https:\/\/www.protocols.io Mistakes to avoid when presenting data https:\/\/www.biostat.wisc.edu\/~kbroman\/topten_worstgraphs\/ Planning to save meta-data Make a cloud datastore […]<\/p>\n","protected":false},"author":1,"featured_media":2279,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"site-sidebar-layout":"default","site-content-layout":"","ast-site-content-layout":"default","site-content-style":"default","site-sidebar-style":"default","ast-global-header-display":"","ast-banner-title-visibility":"","ast-main-header-display":"","ast-hfb-above-header-display":"","ast-hfb-below-header-display":"","ast-hfb-mobile-header-display":"","site-post-title":"disabled","ast-breadcrumbs-content":"","ast-featured-img":"disabled","footer-sml-layout":"","theme-transparent-header-meta":"","adv-header-id-meta":"","stick-header-meta":"","header-above-stick-meta":"","header-main-stick-meta":"","header-below-stick-meta":"","astra-migrate-meta-layouts":"set","ast-page-background-enabled":"default","ast-page-background-meta":{"desktop":{"background-color":"var(--ast-global-color-4)","background-image":"","background-repeat":"repeat","background-position":"center center","background-size":"auto","background-attachment":"scroll","background-type":"","background-media":"","overlay-type":"","overlay-color":"","overlay-opacity":"","overlay-gradient":""},"tablet":{"background-color":"","background-image":"","background-repeat":"repeat","background-position":"center center","background-size":"auto","background-attachment":"scroll","background-type":"","background-media":"","overlay-type":"","overlay-color":"","overlay-opacity":"","overlay-gradient":""},"mobile":{"background-color":"","background-image":"","background-repeat":"repeat","background-position":"center center","background-size":"auto","background-attachment":"scroll","background-type":"","background-media":"","overlay-type":"","overlay-color":"","overlay-opacity":"","overlay-gradient":""}},"ast-content-background-meta":{"desktop":{"background-color":"var(--ast-global-color-5)","background-image":"","background-repeat":"repeat","background-position":"center center","background-size":"auto","background-attachment":"scroll","background-type":"","background-media":"","overlay-type":"","overlay-color":"","overlay-opacity":"","overlay-gradient":""},"tablet":{"background-color":"var(--ast-global-color-5)","background-image":"","background-repeat":"repeat","background-position":"center center","background-size":"auto","background-attachment":"scroll","background-type":"","background-media":"","overlay-type":"","overlay-color":"","overlay-opacity":"","overlay-gradient":""},"mobile":{"background-color":"var(--ast-global-color-5)","background-image":"","background-repeat":"repeat","background-position":"center center","background-size":"auto","background-attachment":"scroll","background-type":"","background-media":"","overlay-type":"","overlay-color":"","overlay-opacity":"","overlay-gradient":""}},"footnotes":""},"class_list":["post-1776","page","type-page","status-publish","has-post-thumbnail","hentry"],"aioseo_notices":[],"jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/pages\/1776","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/comments?post=1776"}],"version-history":[{"count":7,"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/pages\/1776\/revisions"}],"predecessor-version":[{"id":11603,"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/pages\/1776\/revisions\/11603"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/media\/2279"}],"wp:attachment":[{"href":"https:\/\/astrobotany.com\/wp-json\/wp\/v2\/media?parent=1776"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}