Changes between Version 5 and Version 6 of SOP/PatternsMotifs

Timestamp:

07/28/16 09:30:19 (8 years ago)

Author:

gbell

Comment:

--

SOP/PatternsMotifs

@@ -1 +1 @@
 = Searching for patterns, motifs, or profiles in a DNA or protein sequence =
 
-This is a traditional bioinformatics task, any many tools do this in a variety of ways.  One main determinant of tool is your representation of what you're looking for.
+This is a traditional bioinformatics task, and many tools do this in a variety of ways.  One main determinant of tool is your representation of what you're looking for.
 
-== Search for a pattern (text, with optional choices at some positions) ==
+== Search with a pattern (text, with optional choices at some positions) ==
 
 [http://emboss.sourceforge.net/apps/cvs/emboss/apps/dreg.html dreg] (EMBOSS suite) - for nucleic acids (where "pattern" is a regular expression)
@@ -27 +27 @@
 
 
-== Search for a profile (a probability matrix, with choices at all positions) ==
+== Search with a custom profile (a probability matrix, with choices at all positions) ==
 
 These searches are generally a two-step process, one step to create the motif and one step to search with it.  There are several choices of detailed options, so check out the documentation.
@@ -44 +44 @@
 hmmsearch MyProfile.hmm Protein_set.fa > Protein_set.MyProfile.hmmsearch_out.txt
 }}}
+
+== Search with a dataset of profiles ==