.. raw:: html .. toctree:: :hidden: contents MView ===== **MView** reformats the results of a sequence database search (BLAST, FASTA, etc) or a multiple alignment (CLUSTAL, MSF, MAF, etc) adding optional HTML markup to control colouring and web page layout. It can also be used as a filter to extract and convert searches or alignments to common formats. .. mview -in pearson -html head -css on -colormap clustal -coloring .. consensus -threshold 90 -consensus on -con_threshold 90,80 -con_ignore .. class -con_coloring any data.dat .. raw:: html

                        1 [        .         .         .         .         :         .         .         ] 80
  1 EGFR          100.0%  FKKIKVLGSGAFGTVYKGLWIPEGEK---------VKIPVAIKELREATSPK-ANKEILDEAYVMASVDNPHVCRLLGIC 
  2 DMDPR2         35.7%  ISVNKQLGTGEFGIVQQGVWSNGNE-----------RIQVAIKCLCRERMQS-NPMEFLKEAAIMHSIEHENIVRLYGVV 
  3 ITK_HUMAN      32.9%  LTFVQEIGSGQFGLVHLGYWLN--------------KDKVAIKTIREGAMS---EEDFIEEAEVMMKLSHPKLVQLYGVC 
  4 GCTK2ID        21.2%  IREVKQIGVGQFGAVVLAEMTGLS-XLPKGSMNADGVALVAVKKLKPDVSD-EVLQSFDKEIKFMSQLQHDSIVQLLAIC 
  5 CEC55C3        31.5%  VELTKKLGEGAFGEVWKGKLLKILDA-------NHQPVLVAVKTAKLESMTKEQIKEIMREARLMRNLDHINVVKFFGVA 
    consensus/90%         .......G.G.FG.V........................VA.K.................E...M............... 
    consensus/80%         ....K..G.G.FG.V..G.....................VA.K.................EA..M....H...V.L.G..

MView is implemented in Perl as a self-contained command line program that should run cross-platform. Documentation ^^^^^^^^^^^^^ Main topics: * `Manual `_ * `Input formats `_ * `Output formats `_ * `FAQ `_ The full documentation tree is here: * `Contents `_ Download ^^^^^^^^ The `latest version`_ of the software can be downloaded from the SourceForge MView project as a UNIX/Linux gzipped or bzipped tar archive. .. _latest version: https://sourceforge.net/projects/bio-mview Found a bug? ^^^^^^^^^^^^ Please send an email to *biomview _at_ gmail.com*. If MView isn't able to parse your input file or produces a warning message, it would be very helpful if you can include/attach the data file in your email so that I can (1) quickly reproduce the error, and (2) add the example to the test suite. Copyright and licence ^^^^^^^^^^^^^^^^^^^^^ MView and associated libraries are Open Source Software with copyright protected under the `GNU General Public License, version 2`_. .. _GNU General Public License, version 2: etc/Licence.html .. END