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GitHub / GrosseLab / VipeR_HIF1alpha

Viper is a Snakemake workflow, aimed at performing the RNA-seq workflow of the paper 'Causes and consequences of a glutamine induced normoxic HIF1 activity for the tumor metabolism', Kappler et al. (2019) in a reproducible and automated manner

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/GrosseLab%2FVipeR_HIF1alpha

Stars: 5
Forks: 0
Open issues: 0

License: other
Language: R
Size: 13.1 MB
Dependencies parsed at: 47

Created at: about 5 years ago
Updated at: 11 months ago
Pushed at: over 4 years ago
Last synced at: 3 months ago

Topics: differential-gene-expression, python, r, reproducible-research, rna-seq-pipeline, snakemake

Files
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    Readme
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    Dependencies
    wrapper/cutadapt_v0.30.0/pe/environment.yaml conda
    wrapper/cutadapt_v0.30.0/se/environment.yaml conda
    wrapper/fastqc_v0.17.4/environment.yaml conda
    wrapper/fastqc_v0.30.0/environment.yaml conda
    wrapper/featureCounts/environment.yaml conda
    wrapper/multiqc_v0.30.0/environment.yaml conda
    wrapper/salmon_index/environment.yaml conda
    wrapper/salmon_quant_alignment/environment.yaml conda
    wrapper/salmon_quant_reads/environment.yaml conda
    wrapper/salmon_v0.30.0/index/environment.yaml conda
    wrapper/salmon_v0.30.0/quant/environment.yaml conda
    wrapper/sambamba_Index/environment.yaml conda
    wrapper/sambamba_v0.30.0/sort/environment.yaml conda
    wrapper/samtools_v0.30.0/bam2fq/interleaved/environment.yaml conda
    wrapper/samtools_v0.30.0/bam2fq/separate/environment.yaml conda
    wrapper/samtools_v0.30.0/flagstat/environment.yaml conda
    wrapper/samtools_v0.30.0/index/environment.yaml conda
    wrapper/samtools_v0.30.0/merge/environment.yaml conda
    wrapper/samtools_v0.30.0/sort/environment.yaml conda
    wrapper/samtools_v0.30.0/stats/environment.yaml conda
    wrapper/samtools_v0.30.0/view/environment.yaml conda
    wrapper/sickle_PE/environment.yaml conda
    wrapper/sickle_SE/environment.yaml conda
    wrapper/sickle_v0.30.0/pe/environment.yaml conda
    wrapper/sickle_v0.30.0/se/environment.yaml conda
    wrapper/star_align/environment.yaml conda
    wrapper/star_index/environment.yaml conda
    DESCRIPTION cran