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GitHub / brucemoran / somatic_n-of-1
Somatic-Germline n-of-1 DNAseq Analysis
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/brucemoran%2Fsomatic_n-of-1
Stars: 0
Forks: 0
Open Issues: 0
License: None
Language: Nextflow
Repo Size: 317 KB
Dependencies:
97
Created: over 4 years ago
Updated: over 1 year ago
Last pushed: over 1 year ago
Last synced: about 1 year ago
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Dependencies
environment.yaml
conda
- ascat
- bam-readcount
- bbmap
- bcftools
- bedtools
- bioconductor-biomart
- bioconductor-bsgenome
- bioconductor-bsgenome.hsapiens.ucsc.hg19
- bioconductor-bsgenome.hsapiens.ucsc.hg38
- bioconductor-complexheatmap
- bioconductor-customprodb
- bioconductor-dnacopy
- bioconductor-ensdb.hsapiens.v75
- bioconductor-ensdb.hsapiens.v86
- bioconductor-ensembldb
- bioconductor-ensemblvep
- bioconductor-genomeinfodb
- bioconductor-genomicalignments
- bioconductor-genomicfeatures
- bioconductor-genomicranges
- bioconductor-mutationalpatterns
- bioconductor-org.hs.eg.db
- bioconductor-purecn
- bioconductor-structuralvariantannotation
- bioconductor-summarizedexperiment
- bioconductor-txdb.hsapiens.ucsc.hg19.knowngene
- bioconductor-txdb.hsapiens.ucsc.hg38.knowngene
- bioconductor-variantannotation
- bwa
- bzip2
- cairo
- ensembl-vep
- fastp
- fastqc
- gatk4
- htslib
- markdown
- mosdepth
- multiqc
- octopus
- p7zip
- pcre
- perl
- picard
- pisces
- r-base
- r-bedr
- r-biocmanager
- r-circlize
- r-dbplyr
- r-deconstructsigs
- r-devtools
- r-dt
- r-facets
- r-forcats
- r-ggrepel
- r-ggsignif
- r-httr
- r-kernlab
- r-kernsmooth
- r-lubridate
- r-magrittr
- r-nlme
- r-nmf
- r-openssl
- r-openxlsx
- r-pctgcdata
- r-pheatmap
- r-plyr
- r-rcpp
- r-reactable
- r-readxl
- r-reshape2
- r-rmarkdown
- r-rpart
- r-shiny
- r-stringi
- r-stringr
- r-survival
- r-testthat
- r-tibble
- r-tidyr
- r-tidyselect
- r-tidyverse
- r-tinytex
- r-xtable
- samtools
- snp-pileup
- tabix
- ucsc-liftover
- unzip
- varlociraptor
- varscan
- vcf2maf
- vcfanno
- vt
- wget