luizirber / galGal

galGal analysis scripts

galGal

Analysis scripts for galGal

Repository organization

• Makefile

  Driver script

• inputs/

  • chicken_transcripts

    RNASeq prepared by @likit

  • galGal3

    Gallus gallus reference genome, version 3. Publicly available at http://hgdownload.soe.ucsc.edu/goldenPath/galGal3/

  • galGal4

    Gallus gallus reference genome, version 4. Publicly available at http://hgdownload.soe.ucsc.edu/goldenPath/galGal4/

  • galGal5

    Gallus gallus reference genome, draft release of version 5. Not publicly available.

  • human

  • moleculo

  • uniprot

• outputs/

  Output files created by the Makefile or auxiliary scripts.

  Guideline: No output file should be generated based on files outside of inputs/ or workdirs/

• scripts/

  Auxiliary scripts.

• notebooks/

  IPython notebooks containing the analysis.

• workdirs/

  Job submission system outputs and results.

Dependencies

MSU HPCC

On MSU HPCC you can source hpcc.modules for all the dependencies.

License

BSD licensed. See the bundled LICENSE file for more details.