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The Wire
#samtools
Wire posts tagged with 'samtools'
Aaryan Lokwani
@aaryan
Thread
By
Aaryan Lokwani
2344 days ago
Count the contigs length in index fasta file with samtools. $ awk '{s+=$2}END{print s}' scaffolds.fasta.fai
#Fasta
#Index
#Length
#Count
#Size
#Samtools
Shruti Paniwala
@shruti
Thread
By
Shruti Paniwala
2948 days ago
Extract a fasta sequence from multifasta file: samtools faidx multitest.fa and then samtools faidx multitest.fa fasta_id > out.fa
#Samtools
#Fasta
#Extract
#Multifasta
Jit
@jit.aber
Thread
By
Jit
3066 days ago
Extract reference nucleotide from BAM file: samtools view your.bam | awk '{print substr( $10, 100, 1)}'
#SAM
#BAM
#Samtools
#Tricks
#NGS
Poonam Mahapatra
@poonam
Thread
By
Poonam Mahapatra
3072 days ago
#Extract
all
#Reads
from
#BAM
file for a
#region
Chr10:18000-45500 using
#samtools
: samtools view input.bam "Chr10:18000-45500" > output.bam