extract specific information from fastq and sam files
I have a fastq files which looks like this:
7090-001-001_CTGATCGT-GCGCATAT_L004_R1.fastq.gz
7090-001-001_CTGATCGT-GCGCATAT_L004.sam
I need to extract the following information from the file:
1- Read Group Library Identifier
2- Read Group Platform; usually Illumina
3- Read Group Platform Unit
4- Read Group Sample
do you know how I can get above 4 info?
1 answer
See for more information: Obtaining read group information from the Fastq file
Log in to answer this question.
More posts like this
-
Extracting library information from fastq file to add read group with GATK
written by Noctiluca •
-
Is there any tutorial page that tells you how to extract read count from illumina single-cell RNAse…
written by Simon Ahn •
-
Error when I tried to: Add Read group information and align PE reads to the whole human genome¶
written by Phoebe Magdy •
-
obtaining unique identifier for a sample from fastq files
written by Sara
-
Input arguments for AddOrReplaceReadGroups (Picard) from fastq
written by shpak.max •
-
fields of AddOrReplaceReadGroups method in Picard tools
written by Researcher •
-
shell script for bowtie/bwa alignment pair end reads
written by Paul
-
Tophat : Sam-Flag 115 = Properly-Paired + Read.Reverse + Mate.Reverse ?
written by Pierre Lindenbaum
-
Gsnap Error Core Dumps Each Time Before Piping Sam Output To Samtools
written by komal.rathi
-
Platform Unit For Sam Read Group
written by Johan
