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--- lecture_notes:04-28-2010 [2010/04/29 21:31]
learithe created
+++ lecture_notes:04-28-2010 [2010/05/02 05:04]
galt
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+John St. John's lecture on EULER-SR and Celera; Michael Cusack's lecture on MIRA
 === Misc Notes: ===
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-=== Euler ===
+Kevin
+I mapped newbler to join the contigs
+found a bug in the python script to map the solid reads.
+Detected because there were no joining reads
+for the two that joined the extrachromosomal reads.
+There was a sign error in one of my tests.
+Re-did colorspace mapping on newbler5 assembly.
+May still have a bug since one gap is covered by 10 thousand reads
+whereas the other side has one that is only covered by 200 reads.
+Will be looking to see if there is another bug.
+If you have mate-pair data, it's good to have software
+to check for correct answers.  Pog matepair data,
+compare to other assembly tools.
+=== Euler-SR ===
+SR == Short Reads
+Euler-SR is a short-read De Bruijn Graph assembler
+that can use long reads and mate-pairs.
 ran well first time (it ran, at least)  \\

Banana Slug Genomics