KMC 3.0 – K-mer Counter

KMC 3.0

:: DESCRIPTION

KMC is a utility designed for counting k-mers (sequences of consecutive k symbols) in a set of reads from genome sequencing projects.

::DEVELOPER

REFRESH Bioinformatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows/ MacOsX

:: DOWNLOAD

KMC

:: MORE INFORMATION

Citation

S. Deorowicz, M. Kokot, Sz. Grabowski, A. Debudaj-Grabysz,
KMC 2: Fast and resource-frugal k-mer counting.
Bioinformatics. 2015 Jan 20. pii: btv022.

S. Deorowicz, A. Debudaj-Grabysz, Sz. Grabowski,
Disk-based k-mer counting on a PC.
BMC Bioinformatics 2013, 14:160. doi:10.1186/1471-2105-14-160

KCMBT – K-mer Counter based on Multiple Burst Trees

KCMBT

:: DESCRIPTION

KCMBT is a very fast multi-threaded k-mer counting algorithm. It uses cache efficient burst tries to store k-mers

::DEVELOPER

Abdullah-Al Mamun

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux

:: DOWNLOAD

KCMBT

:: MORE INFORMATION

Citation

KCMBT: A k-mer Counter based on Multiple Burst Trees.
Mamun AA, Pal S, Rajasekaran S.
Bioinformatics. 2016 Jun 9. pii: btw345.

galculator 1.0 – Nucleotide frequency counter

galculator 1.0

:: DESCRIPTION

galculator counts nucleotide frequencies in fasta-files. Including:
– Mono-nucleotide frequencies
– Di-nucleotide frequencies
– Gap di-nucleotide frequencies (XnY)

::DEVELOPER

Bioinformatics Leipzig

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux

:: DOWNLOAD

galculator

:: MORE INFORMATION