Subread package: high-performance read alignment, quantification and mutation discovery. The Subread package comprises a suite of software programs for processing next-gen sequencing read data including:
- Subread: a general-purpose read aligner which can align both genomic DNA-seq and RNA-seq reads. It can also be used to discover genomic mutations including short indels and structural variants.
- Subjunc: a read aligner developed for aligning RNA-seq reads and for the detection of exon-exon junctions. Gene fusion events can be detected as well.
- featureCounts: a software program developed for counting reads to genomic features such as genes, exons, promoters and genomic bins.
- exactSNP: a SNP caller that discovers SNPs by testing signals against local background noises.
- 1.5.2 (modul
Example of module initialization and run:
module add subread-1.5.2 subread-buildindex subread-align --help
- Manual PDF.
Subread is a free open source software under GNU GENERAL PUBLIC LICENSE 3