Recent changes to Home

Home modified by jeremycandersen

jeremycandersen — Mon, 25 Jan 2016 18:52:08 -0000

--- v2
+++ v3
@@ -2,7 +2,23 @@

 This page is for installing and trouble shooting the iMSAT program.

-More to come.
+I've recently (2016-01-25) updated the script to v1.2.  Sorry for not providing updates sooner.
+
+iMSAT requires the following:
+1) a modified fasta formatted input file - the current version needs the input file to be a formatted as follows;
+>contig_1 <tab> sequence
+>contig_2 <tab> sequence
+>contig_3 <tab> sequence
+...
+>contig_n <tab> sequence
+
+2) a modified vcf formatted polymorphism report file generated using samtools (all of the header information needs to be removed so that the file starts with the first polymorphic site).
+
+The user then specifies the minimum number of repeat units, and the minimum distance between polymorphic sites.
+
+Some post analysis clean-up is required, currently each microsatellite is counted twice, once as AT and a second time as TA.  I'm working on it.
+
+Let me know if this helps.

Home modified by jeremycandersen

jeremycandersen — Sat, 11 Oct 2014 00:02:17 -0000

--- v1
+++ v2
@@ -1,4 +1,10 @@
-Welcome to your wiki!
+Welcome to the iMSAT wiki page!
+
+This page is for installing and trouble shooting the iMSAT program.
+
+More to come.
+
+

 This is the default page, edit it as you see fit. To add a new page simply reference it within brackets, e.g.: [SamplePage].

Home modified by jeremycandersen

jeremycandersen — Sun, 08 Jun 2014 20:55:56 -0000

Welcome to your wiki!

This is the default page, edit it as you see fit. To add a new page simply reference it within brackets, e.g.: [SamplePage].

The wiki uses Markdown syntax.

Project Members:

jeremycandersen (admin)