Entering edit mode
5.4 years ago
fatimarasool135
▴
90
Hi everyone, I want to generate polyploid consensus sequence for wheat from BAM file for purposes of retrieving the specific sequence of one transcript/ gene.i want to fetch the sequence of transcript/gene abc from rna seq of wheat.what should i do for that?
my command line is: samtools mpileup -uf reference_cdna.fa Batis_Aligned.bam | bcftools call -c --ploidy | vcfutils.pl vcf2fq > Batis_cnpolyploids.fastq but i found this error
call: option '--ploidy' requires an argument
