Difference between revisions of "Bioinformatics:Data Normalization.2C Clustering .26 Collapsing"
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Collapses identical sequences in a FASTQ/A file into a single sequence (while maintaining reads counts). | Collapses identical sequences in a FASTQ/A file into a single sequence (while maintaining reads counts). | ||
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Revision as of 16:32, 15 June 2016
Data Normalization, Clustering & Collapsing
BBNorm
GCATemplates available: no
BBNorm homepage
module load BBMap
bbnorm.sh is the data normalization script that is part of the BBMap package.
BBNorm: Kmer-based error-correction and normalization tool.
CD-HIT
GCATemplates available: no
CD-HIT homepage
module load CD-HIT
CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences.
FASTX-Toolkit
GCATemplates available: no
FASTX-Toolkit homepage
module load FASTX-Toolkit
The fastx_collapser tool is included in the FASTX-Toolkit.
Collapses identical sequences in a FASTQ/A file into a single sequence (while maintaining reads counts).
