Andreas Tille pushed to branch master at Debian Blends Team / med
Commits: a3fbb705 by Andreas Tille at 2020-04-22T16:14:32+02:00 Add all software mentioned here https://lists.debian.org/debian-med/2020/04/msg00235.html to the covid-19 task - - - - - 1 changed file: - tasks/covid-19 Changes: ===================================== tasks/covid-19 ===================================== @@ -22,8 +22,6 @@ Recommends: blat Recommends: chip-seq -Recommends: fastqc - Recommends: fieldbioinformatics Recommends: idseq-dag @@ -33,10 +31,6 @@ Remark: needs auspice Recommends: parasail -Recommends: pycoqc - -Recommends: qcat - Recommends: r-bioc-htsfilter Recommends: r-bioc-mutationalpatterns @@ -61,6 +55,78 @@ Recommends: vadr Recommends: wtdbg2 +X-Comment: <Jun_Aruga> +X-Comment: https://lists.debian.org/debian-med/2020/04/msg00235.html + +Recommends: simde + +Recommends: bowtie2 + +Recommends: minimap2 + +Recommends: bwa + +Recommends: nanoseq +Homepage: https://github.com/nf-core/nanoseq/blob/master/bin/scrape_software_versions.py + +Recommends: guppy +Homepage: https://staff.aist.go.jp/yutaka.ueno/guppy/ +X-FIXME: Is this correct? + +Recommends: qcat + +Recommends: pycoqc + +Recommends: nanoplot +Homepage: https://github.com/wdecoster/NanoPlot + +Recommends: fastqc + +Recommends: graphmap2 +Homepage: https://github.com/lbcb-sci/graphmap2 + +Recommends: samtools + +Recommends: bedtools + +Recommends: multiqc + +Recommends: parallel-fastq-dump +Homepage: https://github.com/rvalieris/parallel-fastq-dump + +Recommends: fastp + +Recommends: picard-tools + +Recommends: ivar +Homepage: https://github.com/andersen-lab/ivar + +Recommends: varscan + +Recommends: snpeff, snpsift + +Recommends: bcftools + +Recommends: cutadapt + +Recommends: kraken2 + +Recommends: spades + +Recommends: unicycler + +Recommends: minia + +Recommends: vg + +Recommends: ncbi-blast+ + +Recommends: abacas + +Recommends: quast + +X-Comment: </Jun_Aruga> + X-Comment: TODO: Check out X-Comment: https://www.bioinformatics.babraham.ac.uk/projects/index.html X-Comment: for further tools @@ -182,8 +248,6 @@ Recommends: python3-drmaa Recommends: fasta3 -Recommends: fastqc - Recommends: genometools Recommends: gffread @@ -214,8 +278,6 @@ Recommends: libmilib-java Recommends: mmseqs2 -Recommends: ncbi-blast+ - Recommends: odil Recommends: orthanc @@ -244,8 +306,6 @@ Recommends: python3-cgecore Recommends: python3-cogent -Recommends: python3-cutadapt - Recommends: python3-depinfo Recommends: python3-etelemetry @@ -326,7 +386,6 @@ Recommends: toil Recommends: umis -Recommends: vg Recommends: workrave View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/a3fbb7055d702dba787aae6383499e6db33527f5 -- View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/a3fbb7055d702dba787aae6383499e6db33527f5 You're receiving this email because of your account on salsa.debian.org.
_______________________________________________ Blends-commit mailing list [email protected] https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/blends-commit
