Skip to content
Snippets Groups Projects
Select Git revision
  • corescf
  • dev_genic_counts
  • gsea_dev
  • madmax
  • master default protected
  • star_kotlin_stranded
  • v1.1
  • v11
  • v10
  • v9
  • v8
  • v7
  • v6
  • v5
  • v4
  • v3
  • v2
  • v1
  • belicova_mouse__20170519
  • moath_rnaseq__20170424
  • fam72d_transfection_seq__20170315
  • meyer_rnaseq__20170315
22 results
You can move around the graph by using the arrow keys.
Created with Raphaël 2.2.011Jan1098222Dec2120191815141311429Nov272321201615139727Oct262524191613121120Sep191815148654131Aug302328Jul26242120191830Jun29222120191513982131May2924231918169428Apr2724191024Mar2322151392122Dec9123Nov181420Oct18121116Sep15149626Aug244128Jul8765124Jun151432130May2625201917131211109428Apr2012864124Mar2117161582129Feb26252423854129Jan2726158765418Dec1611982112Nov963228Oct2322211918728Sep2221181716151187331Aug2524201930Jul2923211714133130Jun29242319161511109321May20191230Apr2928272316987131Mar2720181716131211109413Feb123228Jan272114619Dec181712118528Nov272624212014moved session info from report into session dumpimproved kallisto helpersadded count matrix exportadded export of the basic design file updated with information on the cells' cell cycle phases; changed exported session file to a dot fileMerge remote-tracking branch 'origin/master'added export of combined STAR and kallisto dataset; changed setting from 5% to 1% of most divergent counts; cosmeticsincluded saturation plot based on simulated sequencing depthsfixed typo in index suffixMerge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_toolsMerge remote-tracking branch 'origin/master'more robust cluster bioinfo sync for indicesfixed bug in the step where the list of SingleCellExperiment objects is createdbetter indexing parallelizationseparated genome indexing into own scriptMerge remote-tracking branch 'origin/master'started script to perform quality control of single cell RNAseq data. This is the first script of our new workflow, i.e. sc_workflow/Merge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_toolsadded appifyadded platform independent symlinksstarted script to compare kallisto and star dataadded input argument '<cdna_file_name>', genome information, sample information and plot of the proportion of pseudoaligned readsrun_kallisto(): saved kallisto log files and passed information on the used cdna file to collect_kallisto_data.Radded output of pseudoalignments as sam and bam filesremoved _linuxrefined batch correction toolingmoved call of the collect_kallisto_data.R script to run_kallisto() in the dge_utils.sh scriptincluded function to build_kallisto_index() and included the call of collect_kallisto_data.R in the run_kallisto functionremoved the prerequisite to give basic_design.txt as inputincluded tpms_by_gene in kallisto_results.txt outputincluded command to create 'expression explorer' appincluded function to create 'expression explorer' app (i.e. dge_create_explorer_app)created script to analyse kallisto dataadded mapping with kallisto and kallisto data analysisadded path to kallistoMerge remote-tracking branch 'origin/master'created bash script to run the expression explorer app either via bash or as a 'proper' app when processed with appifyMerge remote-tracking branch 'origin/master'changed to use heatmaplyfixed batch correction to include treatmentsuse rlog instead of vst