Seqcons

(c) Copyright 2009 by Tobias Rausch

Web Documentation for Seqcons

Options

method
alignment method
bandwidth
bandwidth
noalign
no align, only convert input
matchlength
min. overlap length
quality
min. overlap precent identity
overlaps
min. number of overlaps per read
window
The window size. If this parameter is greater than 0 then all overlaps within a given window are computed.
include
include contig sequence
rmethod
realign method

Input Ports

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file with reads [fa,fasta,opt.]
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message file [afg,opt.]
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Sam file [sam,opt.]
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FASTA file with contigs, ignored if not Sam input [fa,fasta,opt.]

Output Ports

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output filename [afg,seqan,cgb,sam]

Popular Predecessors

Views

Seqcons Std Output
The text sent to standard out during the execution of Seqcons.
Seqcons Error Output
The text sent to standard error during the execution of Seqcons. (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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Further Links

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