Papers: 10.1186/s12859-016-1241-0
https://doi.org/10.1186/s12859-016-1241-0
systemPipeR: NGS workflow and report generation environment
Cited by: 148
Author(s): Tyler W. H. Backman, Thomas Girke
Published: almost 9 years ago
Software Mentions 19
bioconductor: BiocParallel
Bioconductor facilities for parallel evaluationPapers that mentioned: 30
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bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distributionPapers that mentioned: 9,583
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bioconductor: edgeR
Empirical Analysis of Digital Gene Expression Data in RPapers that mentioned: 6,568
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bioconductor: GenomicAlignments
Representation and manipulation of short genomic alignmentsPapers that mentioned: 134
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bioconductor: GenomicRanges
Representation and manipulation of genomic intervalsPapers that mentioned: 323
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bioconductor: Rsamtools
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file importPapers that mentioned: 138
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bioconductor: Rsubread
Mapping, quantification and variant analysis of sequencing dataPapers that mentioned: 331
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bioconductor: systemPipeR
systemPipeR: workflow management and report generation environmentPapers that mentioned: 27
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bioconductor: VariantTools
Tools for Exploratory Analysis of Variant CallsPapers that mentioned: 15
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pypi: bcbio-nextgen
Best-practice pipelines for fully automated high throughput sequencing analysisPapers that mentioned: 43
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