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Created with Raphaël 2.2.022Jul2017161413109872130Jun2926252414131211109843230May2928272615141312119876130Apr29262524232221201918161525Mar191817assembly polishing w/ racon and metat (issue #52)added notes (short scripts etc.) incl. scripts for issue #65cleanup: rm backup filesreport: added diamond density plotadded mash screen analysis (issue #64)updated slurm.yaml for GIS20: longer runtime for mapping_assembly_uniqupdated configs: updated mapping rule names in slurm configs; other minor changesUpdate cluster.jsoncdhitcdhitUpload New FileUpload New FileUpload New FileUpload New Filesnakefile and relevant config files for clustering FLYE versus other assemblies with cdhitupdated configs for ganges dataset (issue #60)forgot to rm mapping and coverage from assembly stepupdated ganges config files; fixed a bug in init.smk and basecalling.smkupdated ganges config.yaml (merged); changed how input files are linkedchanged how input files are linkedupdated ganges config.yamlconfig files etc for ganges sampleadded configs for GIS20 (issue #57)minor changes in sbatch.sh (GDB, Zymo)renamed in config/: Zymo-GridION-EVEN-BB-SN to Zymoreport: added mash figure (ssiue #59)updated fastqc.yamlupdated gitignorechanged init: fixed a bug in init.smk (issue #56)changed init: fixed a bug in init.smk (issue #56)changed init: fixed a bug and rm unsed file (issue #56)changed init: LR can have FASTQ (instead of FAST5); updated configs (issue #56); other minor changesupdated config.yaml for GDB and mockinit.smk for workflow and workflow_reportupdated mash rules (issue #58)added mash analysis (issue #58)added circ_contigs_fasta.py (issue #53); added kraken2 (tax) (issue #55)blast-based analysis: find putative circ contigs (issue #53)report: exclude metat if no data providedupdated Zymo-GridION-EVEN-BB-SN/sbatch.shmv config/sbatch.sh to sub-folder Zymo-GridION-EVEN-BB-SNMerge branch 'cleanup' of ssh://git-r3lab-server.uni.lu:8022/susheel.busi/ont_pilot_gitlab into cleanup