View source for Bioinformatics:Data Normalization.2C Clustering .26 Collapsing

= NGS: Data Normalization, Clustering & Collapsing =
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== BBNorm ==
[[Ada:GCATemplates|GCATemplates]] available: no

BBNorm [https://sourceforge.net/projects/bbmap/ homepage]

  module spider 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 ==
[[Ada:GCATemplates|GCATemplates]] available: no

CD-HIT [http://weizhongli-lab.org/cd-hit/ homepage]

  module spider CD-HIT

CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences.


== FASTX-Toolkit ==
[[Ada:GCATemplates|GCATemplates]] available: no

FASTX-Toolkit [http://hannonlab.cshl.edu/fastx_toolkit/ homepage]

  module spider 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).

[[Category:Ada:NGS]]