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