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Shell Programming and Scripting
Changing from FASTA to PHYLIP format
Post 302498239 by bartus11 on Sunday 20th of February 2011 06:02:50 PM
02-20-2011
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1. Shell Programming and Scripting
Hi,
Is there any way to change one date format to another ?? I mean I have a file having dates in the format (Thu Sep 29 2005) ... and i wud like to change these to YYYYMMDD format .. is there any command which does so ?? Or anything like enum which we have in C ??
Thanks in advance,
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Hi,
There are lots of threads about how to manipulate the date using date +%m %.......
But how can I change the default format of the commad date?
$ date
Mon Apr 10 10:57:15 BST 2006
This would be on fedora and SunOs.
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Dear Experts,
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8718,8718,0,8777
7450,7450,0,7483
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Hi,
I'm in need of creating a file in the fasta format:
>1A6A.A
HVIIQAEFYLNPDQSGEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYTPITN
VPPEVTVLTNSPVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLPSTEDVYDCR
VEHWGLDEPLLKHWEF
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Hi all,
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LEARN ABOUT DEBIAN
muscle
MUSCLE(1) Muscle Manual MUSCLE(1) NAME
muscle - Multiple Protein Sequence Alignment SYNOPSIS
muscle -in input file (fasta) [-out output file (default fasta)] [-diags] [-log log file] [-maxiters n] [-maxhours n] [-maxmb m] [-html] [-msf] [-clw] [-clwstrict] [-log[a] logfile] [-quiet] [-stable] [-group] [-version] DESCRIPTION
This manual page documents briefly the muscle command. muscle aligns protein sequences and is considered superior and faster than Clustal W. OPTIONS
-in input file Path to FASTA formatted input file -out output file Path to output file, FASTA formatted by default -diags Find diagonals (faster for similar sequences) -maxiters n Maximum number of iterations (integer, default 16) -maxhours n Maximum time to iterate in hours (default no limit) -maxmb m Maximum memory to allocate in Mb (default 80% of RAM) -html Write output in HTML format (default FASTA) -msf Write output in MSF format (default FASTA) -clw Write output in Clustal W format (default FASTA) -clwstrict As -clw, with 'CLUSTAL W (1.81)' header -log[a] logfile Log to file (append if -loga, overwrite if -log) -quiet Do not write progress messages to stderr -stable Output sequences in input order (default is -group) -group Group sequences by similarity (this is the default) -version Display version information and exit SEE ALSO
clustalw(1), seaview(1), t_coffee(1). AUTHORS
Robert Elgar Wrote Muscle. Steffen Moeller <moeller@debian.org> Wrote this manpage. Charles Plessy <charles-debian-nospam@plessy.org> Updated this manpage. COPYRIGHT
Copyright (C) 2003, 2004 Steffen Moeller (manpage) Copyright (C) 2007, 2008 Charles Plessy (manpage) Muscle is in the public domain, and therefore not subjected to copyright. This manual page was written by Steffen Moeller moeller@debian.org for the Debian(TM) system (but may be used by others). Permission is granted to copy, distribute and/or modify this document as if it were in public domain. muscle 3.7 02/06/2008 MUSCLE(1)