Slimm

SLIMM Species Level Identification of Microbes from Metagenomes

See http://www.seqan.de/projects/slimm for more information.

(c) Copyright 2014-2017 by Temesgen H. Dadi.

Web Documentation for Slimm

Options

version-check
Turn this option off to disable version update notifications of the application.
bin-width
Set the width of a single bin in neuclotides.
min-reads
Minimum number of matching reads to consider a reference present.
rank
The taxonomic rank of identification
cov-cut-off
the quantile of coverages to use as a cutoff smaller value means bigger threshold.
abundance-cut-off
do not report abundances below this value
directory
Input is a directory.
raw-output
Output raw reference statstics
coverage-output
Output raw coverage statstics
verbose
Enable verbose output.

Input Ports

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[sldb]
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[*]

Output Ports

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output path prefix. [*]

Views

Slimm Std Output
The text sent to standard out during the execution of Slimm.
Slimm Error Output
The text sent to standard error during the execution of Slimm. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)

Workflows

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Links

Developers

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