Skip to content
Snippets Groups Projects
Select Git revision
  • cluster_exc
  • main default protected
  • module_with_contamination
  • nour
  • test-sam-header
5 results
You can move around the graph by using the arrow keys.
Created with Raphaël 2.2.028Mar252414425Feb211330Jan27232118Dec17161312105229Nov25Oct21168230Sep272328Feb16Oct20Sep192Sep131Aug25191615414Jul25May29Mar17161415Dec19Nov26Oct20193Sep30Augsave coverage analysis files for re-creating heatmapsmodule_with_con…module_with_contaminationadd environment for creating plotly figuressave distribution analysischange .png extensions to .pdf, add empty samples list in configclear notebook outputre-arrange rulessave notebook analysis in .txt and .pdf formatUpdate README.mdmainmainUpdate README.mdworkflow can either automatically detect samplefix analysis after contamination removalremove temporary files from rule_all, add input files missing for genotype ruleadd more temporary files to be removed when workflow finishremove chromosome info from coverage analysis, only keep contigssamtools multithreading scheduling fixfix memory allocation for samtool multithreading rulesfix file paths missing / in jupyter notebookremove kraken memory mapping for slurmfixing filepaths for conda environment paths, notebook paths, and notebook inputsmodify resource parameters from time to runtime, value 12:00:00 to 12hfix path error for notebook analysis outputsfix snakemake wildcard error for log filechange default email waiting time to 12:00:00 to be consistent with the group schedualing timefix log files; change email waiting time to 12:00:00fix resources for dynamic schedulingfix file path for python scriptadd dynamic scheduling for crop_unmappedadd cluster configuration for all rules, update README, remove manual input for sample namesfix binary paths, rename git submodulefix wokrflow_path of python scriptadd option to turn on and off email notificationsfix path for kraken_db specificationadd ability to send user email notifications before jupyter notebook execution; fix workflow_path issuesmodify config pathsrename modules; seperate output paths and workflow pathsadd read numbers analysis for after kraken with no sickle filteringresolve issue with coverage input for find_location rule when analysis parameter is turned offmodify notebook input pathfix bin size consistency across sample analysismodify coverage analysis output and add samtools environment for coverage analysis