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khmer: Abundance Distribution (all-in-one) (version 3.0.0a3+galaxy2)

Sequence in FASTA or FASTQ format:

Save the k-mer countgraph to a file:

zero:

Output zero count bins

bigcount:

Count k-mers past 255 occurences

Advanced Parameters:

ksize, n_tables, a specific tablesize

Sample Type:

Calculate the abundance distribution of k-mers from a single sequence file.

Note that with -b this script is constant memory; in exchange, k-mer counts will stop at 255. The memory usage of this script with -b will be about 1.15x the product of the -x and -N numbers.

(from the khmer project: http://khmer.readthedocs.org/en/v2.0/ )