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archive:specific_task [2015/05/18 19:13] karplus added a couple of PRICE tasks and a library prep task (which may need to be split) |
archive:specific_task [2015/05/26 17:03] jdhouser |
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|Task| Assignee | Status | Notes| | |Task| Assignee | Status | Notes| | ||
- | |Find virus contigs and use PRICE to expand to full viruses | unassigned | | | | + | |Find virus contigs and use PRICE to expand to full viruses | Cole,jolespin | | jolespin virus assembly progress can be accessed at [[jolespin_virus]]| |
| Mate-pair adapter and linker removal| | | | | | Mate-pair adapter and linker removal| | | | | ||
| Measuring insert size for each mate-pair library | unassigned | | | | | Measuring insert size for each mate-pair library | unassigned | | | | ||
| Making Seqprep, adapter removed, end-trimmed library files | unassigned | | | | | Making Seqprep, adapter removed, end-trimmed library files | unassigned | | | | ||
- | | Blast long contigs and analyze results | unassigned | | Check the browser for the 30 longest contigs from each group with contigs| | + | | Blast long contigs and analyze results | Houser| | Check the browser for the 30 longest contigs from each group with contigs| |
| Find genes in the mitochondrial genome | unassigned | | The genome is on the browser, find it here https://banana-slug.soe.ucsc.edu/banana_slug_genome_browser | | | Find genes in the mitochondrial genome | unassigned | | The genome is on the browser, find it here https://banana-slug.soe.ucsc.edu/banana_slug_genome_browser | | ||
| Use PRICE to get mitochondrial genome as single contig | Natasha Dudek? | | | | | Use PRICE to get mitochondrial genome as single contig | Natasha Dudek? | | | | ||
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| Find cost of creating a tagmentase library| Dudek | | ~$50 | | | Find cost of creating a tagmentase library| Dudek | | ~$50 | | ||
| Merge/trim new data (SeqPrep) | Hussain | Completed | See wiki page for each data set for details | | | Merge/trim new data (SeqPrep) | Hussain | Completed | See wiki page for each data set for details | | ||
- | | Analyze new data (preqc) | Richardson | In progress | | | + | | Analyze new data (preqc) | Richardson | In progress | {{:ucsf_new_lib_preqc_report.pdf|}}| |
| Error Correction new data| McGovern (Musket) & Richardson (BLESS/racer) | In progress | These programs have not yet been run succesfully... | | | Error Correction new data| McGovern (Musket) & Richardson (BLESS/racer) | In progress | These programs have not yet been run succesfully... | | ||
| Install bowtie | Chaves | In progress |/campusdata/gchaves/Bowtie/bowtie2-2.2.5 (Not yet running successfully)| | | Install bowtie | Chaves | In progress |/campusdata/gchaves/Bowtie/bowtie2-2.2.5 (Not yet running successfully)| |