Sequence Alignment
From Crop Genomics Lab.
Revision as of 06:12, 17 December 2014 by Sangrea Shim (Talk | contribs)
Sequence Alignment
Materials: Mungbean CDS sequence file(FASTA), Transcriptome sequence of mungbean Softwares: BOWTIE2, samtools
Pick CDS sequences which is located on Vradi01 chromosome
using your own python code or $ tr '\n' '\t' < Vradi_ver6.fa.cds.primary.fasta |sed 's/\t>/\n>/g' |grep 'Vradi01g' |tr '\t' '\n'
Build FM index
$ bowtie2-build CDS.fasta CDS.fasta
