Hg19 Andy's alignment notes
From genomewiki
- everything run with -noLoadChainSplit -chainMinScore=3000 -chainLinearGap=medium
| Species | Database | Started | SEQ1_CHUNK | SEQ2_CHUNK | SEQ2_LIMIT | Status |
|---|---|---|---|---|---|---|
| Squirrel | speTri1 | 2009-05-14 | 10M | 10M | 100 | loaded |
| Cat | felCat3 | 2009-05-14 | 10M | 10M | 300 | loaded |
| Guinea Pig | cavPor3 | 2009-05-14 | 10M | 10M | 100 | trying to load manually (2009-05-21) |
| Cow | bosTau4 | 2009-05-21 | 10M | 10M | 300 | done through 'cat' step (2009-05-21) |
| Megabat | pteVam1 | 2009-05-21 | 10M | 10M | 200 | done through 'cat' step (2009-05-21) |
| Horse | equCab2 | 2009-05-21 | 10M | 10M | 300 | chaining chr19 (2009-05-21) |
| Alpaca | vicPac1 | 2009-05-21 | 10M | 10M | 100 | aligning (420,000 jobs) (2009-05-21) |
| Microbat | myoLuc1 | 2009-05-21 | 20M | 10M | 300 | 'blastz' step try two on swarm instead of pk with bigger chunks (too much IO time) (2009-05-21) |
| Dolphin | turTru1 | 2009-05-21 | 10M | 10M | 200 | 'blastz' step on pk with over 400,000 jobs (2009-05-21) |
