academic/meme-suite: Updated for version 5.1.0.

Signed-off-by: Robby Workman <rworkman@slackbuilds.org>

1 files changed, 22 insertions, 26 deletions

diff --git a/academic/meme-suite/README b/academic/meme-suite/README
index f516c7e37141a..b48cdaf9f765c 100644
--- a/academic/meme-suite/README
+++ b/academic/meme-suite/README
@@ -1,35 +1,31 @@
 The MEME suite: motif based sequence analysis tools
 
-The MEME suite provides tools for discovering and using protein and
-DNA sequence motifs.  A motif is a pattern of nucleotides or amino acids
-that appears repeatedly in a group of related DNA or protein sequences.
+The MEME Suite allows the biologist to discover novel motifs in
+collections of unaligned nucleotide or protein sequences, and to perform
+a wide variety of other motif-based analyses. The Suite supports motif-
+based analysis of DNA, RNA and protein sequences. It provides motif
+discovery algorithms using both probabilistic (MEME) and discrete models
+(MEME), which have complementary strengths. It also allows discovery of
+motifs with arbitrary insertions and deletions (GLAM2). In addition to
+motif discovery, the MEME Suite provides tools for scanning sequences
+for matches to motifs (FIMO, MAST and GLAM2Scan), scanning for clusters
+of motifs (MCAST), comparing motifs to known motifs (Tomtom), finding
+preferred spacings between motifs (SpaMo), predicting the biological
+roles of motifs (GOMo), measuring the positional enrichment of sequences
+for known motifs (CentriMo), and analyzing ChIP-seq and other large
+datasets (MEME-ChIP).
 
-The MEME suite represents motifs as position-dependent scoring matrices.
-It consists of programs which allow you to:
+Check README.TESTS for runing the recommended tests on the compiled
+executables. Here, the tests *FAIL* on a 32bit system!
 
-- meme      - discovery of motifs shared by a group of sequences
-- mast      - search of databases for sequences containing these motifs
-- tomtom    - searching databases of motifs for similar motifs
-- gomo      - finding Gene Ontology terms linked to the motifs
-- glam2     - discovery of gapped motifs
-- glam2scan - scanning sequences with gapped motifs
-- fimo      - scanning sequences with motifs
-- mcast     - finding motif clusters
-- meme-chip - analysis of large DNA datasets like ChIPseq output
-- spamo     - finding motif complexes by analysing motif spacing
-- dreme     - discovery of short regular expression motifs
-
-Note: building on a 32bit architecture fails at the 'make test' step
-(check script). If the step is disabled, the suite builds, however it
-may or may NOT work properly. Therefore, 32bit is set as 'UNTESTED'.
-The 'make test' step will also fail if you don't build in a proper root
-environment.
+Check README.DATABASES for more info or if you want to install
+meme-suite without the databases present at build time.
 
 To cite the full MEME suite:
-Timothy L. Bailey, Mikael Bodén, Fabian A. Buske, Martin Frith,
-Charles E. Grant, Luca Clementi, Jingyuan Ren, Wilfred W. Li,
-William S. Noble, "MEME SUITE: tools for motif discovery and searching",
-Nucleic Acids Research, 37:W202-W208, 2009.
+Timothy L. Bailey, Mikael Bodén, Fabian A. Buske, Martin Frith, Charles
+E. Grant, Luca Clementi, Jingyuan Ren, Wilfred W. Li, William S. Noble, 
+"MEME SUITE: tools for motif discovery and searching", Nucleic Acids
+Research, 37:W202-W208, 2009.
 
 To cite individual tools, please check the citation page:
 http://meme-suite.org/doc/cite.html