MasaiMapper

Masai is a fast and accurate read mapper based on approximate seeds and multiple backtracking.

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

(c) Copyright 2011-2012 by Enrico Siragusa.

Web Documentation for MasaiMapper

Options

mapping-mode
Select mapping mode.
mapping-block
Maximum number of reads to be mapped at once.
errors
Maximum number of errors per read.
seed-length
Minimum seed length.
no-gaps
Do not align reads with gaps.
index
Select the genome index type.
index-prefix
Specify an genome index prefix name. Default: use the genome filename prefix.
no-cigar
Do not output CIGAR string. This only affects SAM output.
no-verify
Do not verify seed hits.
no-dump
Do not dump results.
no-multiple
Disable multiple backtracking.

Input Ports

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[fasta,fa]
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[fastq,fasta,fa]

Output Ports

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Specify an output file. Default: use the reads filename prefix. [raw,sam]

Popular Predecessors

Popular Successors

Views

MasaiMapper Std Output
The text sent to standard out during the execution of MasaiMapper.
MasaiMapper Error Output
The text sent to standard error during the execution of MasaiMapper. (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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Installation

To use this node in KNIME, install the extension SeqAn from the below update site following our NodePit Product and Node Installation Guide:

v4.7

A zipped version of the software site can be downloaded here.

Plugin provider: Freie Universitaet Berlin, Universitaet Tuebingen, and the SeqAn Team
Plugin version: 2.4.1.202004061533
On NodePit since: 2022-12-06
Last update: 2024-04-20
KNIME versions: From v3.6 to v4.7

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