Monthly Archives: July 2011

This has been a big mess and confusion in the genomic research community about the “chromosome position” issue, some have “0″ base, some have “1″ base etc… First of all, UCSC uses “0″ base start, and “1″ stop SVA uses … Continue reading →

1. Existing pipeline look up 2. Any additional improvement 3. Submit job directly from lsrc cluster 4. GATK unsolved issue (read group) 5. Revisit proposal Jessica sent earlier Pipeline_upgrade_plan 6. It turned out that we are not going to spend … Continue reading →

From system 1: Step 1. Log in to the system Step 2. ssh-keygen -t dsa Step 3. Press “enter” 3 times Step 4. cd to home directory Step 5. cd .ssh Step 6 cp id_dsa.pub authorized_keys Step 7. Copy your … Continue reading →

I had reported the marginal “gain” from GATK recalibration procedure. It is an “yes and no” results, because no apparent gain was obtained from the process. David & Dongliang had commented on this report hi jianying thanks for this. all … Continue reading →