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Scripts for pipeline interaction with RNA-Seq mapping software

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Name		Name	Last commit message	Last commit date
Latest commit History 13 Commits
README.md		README.md
hisat2build.py		hisat2build.py
hisat2map.py		hisat2map.py
hisat_map.py		hisat_map.py
star_generate_genome_indexes.sh		star_generate_genome_indexes.sh
star_map.py		star_map.py

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mappingSoftwareScripts

Simple scripts for pipeline interaction with RNA-Seq mapping software

Mapping Software Packages Supported

HISAT: [https://github.com/infphilo/hisat.git]
HISAT2: [https://github.com/infphilo/hisat2]
STAR: [https://github.com/alexdobin/STAR]

Files, Sorted by Mapper

HISAT

hisat_map.py: Batch runs HISAT mapping software for a set of trimmed fastq files outputted from skewer

HISAT2

hisat2build.py: Builds hisat2 indexes needed to run hisat2 mapping
hisat2map.py: Batch runs HISAT2 mapping software for a set of trimmed fastq files outputted from skewer

STAR

star_generate_genome_indexes.sh: Builds hisat2 indexes needed to run STAR mapping
star_map.py: Batch runs STAR mapping software for a set of trimmed fastq files outputted from skewer

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Scripts for pipeline interaction with RNA-Seq mapping software

rna-seq-mapping

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