From faf52892178cae808177de2f1235576e12053580 Mon Sep 17 00:00:00 2001 From: Kevin Legarreta Date: Fri, 15 Dec 2017 23:05:03 -0400 Subject: [PATCH] Update README.md --- README.md | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) diff --git a/README.md b/README.md index a97d49b..2eb3e7f 100644 --- a/README.md +++ b/README.md @@ -1,2 +1,20 @@ # DBGDE Using pre-made software trying to implement Mutual software algorithm to get differential expression. + + +We have: +- One implementation trying to get GFA2 working at: https://github.com/Omig12/Mutual-pepino +- The one I just did is GFA1 with GFApy working and beign read by Bandage. Used segment for both fragment and the segment, the Segment appears first follow by the kmer subsegments. +``` + Format of GFA1 Segment is: S id_of_original_segment contig. +``` +``` + Format of GFA1 subSegment is: S id_of_original_segment:subsegmentid:(A:count,B:count) kmer +``` +Where id_of_original_segment is the same as first segment, subsegmentid is this kmer id, a tuple with the count of all the times that kmer appears in the organism. + +An example to run the dbg.py is: + +``` +python dbg.py -k -A -B +```