Genome Weaver - A Toolkit for Genome Sciences

• align - FM-index based Aligner
• lens - Data format reader (FASTA,FASTQ,BED,WIG,GFF,SAM/BAM,etc.)

Install

$ make install

Default installation folder is $HOME/local/bin/genome-weaver

Building BWT index

$ JVM_OPT="-Xmx=32g" genome-weaver bwt hg19.fa 

Single-end alignment

$ genome-weaver align -r hg19.fa (fastq file)  > (sam file)

Paired-end alignment

(soon)

Configure your Git

$ git confgi core.eol lf
$ git config core.autocrlf input