Description

Fast lightweight accurate xenograft sorting

Input

Name
Description
Pattern

host_fasta (file)

Reference genome fasta file from host, compressed or uncompressed.

graft_fasta (file)

Reference genome fasta file from graft, compressed or uncompressed.

index (string)

File name prefix to store index files.

nobjects (string)

Number of k-mers that will be stored in the hash table. Underscore should be used, i.e for 1000000, it should be typed 1_000_000.

mask (string)

Gapped k-mer mask (quoted string like '#_####__#').

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

Tools

xengsort Documentation

A fast xenograft read sorter based on space-efficient k-mer hashing

doi: 10.4230/LIPIcs.WABI.2020.4License: MIT
Authors