August 2015

August 6, 2015

In attendance: KH, PD, MP, TD, BB

In progress. MP doing all 9 core species (no precedent for this).
First build from github code base (no problems so far)
How long will BLAST for all 9 species take (all BLASTX and BLASTP will need to be re-done, since all of the worm proteomes have changed)
Problems
- RNAis with bad DNA_text. Cleaned and reported to Caltech
- NCBI taxonomy database at EBI changed location, config needed a patch

B. malayi
- WS248 Brugia submission now live at ENA
- Gene prediction on new assembly
  - Looking at RATT transfers from old assembly
  - Using HAL mapping to project genes also works quite well.
  - AUGUSTUS to fill in the gaps
- Handover will be Monday 10th August (during Brugia conference call)
C. remanei
- Bad data. Submitter does not have time right now to clean. Will be deferred from this build
General
- Hawaain strain - will go in as T3. BLASTable.
- Cleaning up T2. Getting rid of in-frame STOPs for P. pacific us
- Cleaning up Brief_identifcation for protein-coding and pseudogenes.

New release out
BLAST
- Fixed glitches in new service
- Discussed potential minor improvements to font page
Analytics
Redesign of the home page. Make it more WormBase compliant.
- Search box confusion