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--- lecture_notes:05-15-2015 [2015/05/18 15:02]
gepoliano
+++ lecture_notes:05-15-2015 [2015/05/18 15:02]
gepoliano
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 =====SGA update=====
-* SGA is a memory efficient assembler
+  * SGA is a memory efficient assembler
-*It was possible to compute more compressed data
+  * It was possible to compute more compressed data
-*The pipeline changed, since it was not easy to figure out how to run it
+  * The pipeline changed, since it was not easy to figure out how to run it
-*It was necessary to make sure the parameters are running
+  * It was necessary to make sure the parameters are running
--The group assembled one dataset, merged together
+  * The group assembled one dataset, merged together
--SGA indexed each dataset separated
+  * SGA indexed each dataset separated
--Merging is complicated in a pairwise fashion, then two pairs were merged at a time
+  * Merging is complicated in a pairwise fashion, then two pairs were merged at a time
--Indexing all three sistinct submissions
+  * Indexing all three sistinct submissions
--Pre-processed adapter trimming
+  * Pre-processed adapter trimming
--Duplicate-removal is later than indexing
+  * Duplicate-removal is later than indexing
--One issue the group found: SW018 and 19, same library are optical PCR duplicates that should be removed
+  * One issue the group found: SW018 and 19, same library are optical PCR duplicates that should be removed

Banana Slug Genomics