KnownGene: Difference between revisions
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== Build UniProt and Protein databases == | |||
== Initialize work directory == | |||
*Create and cd into work directory of the form /hive/data/genomes/$db/bed/gencode$GENCODE_VERSION/build | |||
*Start a screen. | |||
*Copy buildEnv.sh from previous build on this db | |||
== Setting environment variables == | == Setting environment variables == | ||
| Line 7: | Line 17: | ||
== Adding primary reference tables == | == Adding primary reference tables == | ||
== Building final knownGene core tables == | == Building final knownGene core tables == | ||
== Building bigGenePred == | |||
== Adding trackDb entry == | |||
== Adding IsPcr server | |||
== all.joiner changes == | |||
Latest revision as of 16:50, 23 August 2021
Build UniProt and Protein databases
Initialize work directory
- Create and cd into work directory of the form /hive/data/genomes/$db/bed/gencode$GENCODE_VERSION/build
- Start a screen.
- Copy buildEnv.sh from previous build on this db
Setting environment variables
The environment variables used in the build are set in the script buildEnv.sh. All the other scripts assume that this script has been sourced in the current shell.
Extracting Gencode data
Building initial knownGene table
Adding primary reference tables
Building final knownGene core tables
Building bigGenePred
Adding trackDb entry
== Adding IsPcr server
