lecture_notes:05-27-2011
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lecture_notes:05-27-2011 [2011/05/27 21:22] eyliaw |
lecture_notes:05-27-2011 [2011/05/27 22:19] eyliaw |
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| ====== To Do ====== | ====== To Do ====== | ||
| - | We went over some things that need updating in the wiki. | + | We went over some things that need updating in the wiki and plans for this weekend. |
| * Document scripts added in [[computer_resources:bin|bin]] folder. | * Document scripts added in [[computer_resources:bin|bin]] folder. | ||
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| * Find out which lanes in 454 run 3 are banana slug runs. | * Find out which lanes in 454 run 3 are banana slug runs. | ||
| * Try mapping with Newbler or BWA. | * Try mapping with Newbler or BWA. | ||
| * BLAST/BLAT it. | * BLAST/BLAT it. | ||
| - | * | + | * Find insert lengths for the SeqPrep + Quake corrected Illumina data. |
| + | * SOAPdenovo assembly try 1: | ||
| + | * Only on Illumina data. | ||
| + | * try 2: | ||
| + | * Rank 1: All Illumina data for contig building. | ||
| + | * Rank 2: 454 data for scaffolding. | ||
| + | * try 3: | ||
| + | * Illumina + 454 data as rank 1. | ||
| + | * # If insert length is negative, don't treat them as PE reads. | ||
| + | * Newbler assemblies. | ||
| + | * Take another look at Barcode of Life mapping: [[http://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi#SG5|Invertebrate mitochondrial translation table]] | ||
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| + | * Ed presenting paper on Wednesday. Get paper over the weekend. | ||
lecture_notes/05-27-2011.txt · Last modified: 2015/09/14 18:40 by 68.180.230.228
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