Shard Detail

decon_blastBTK v0.1.0

wrapper to parse out BTK ids and blast them vs a blast server

Install & Use

Add the following code to your project's shard.yml under:

dependencies to use in production
- OR -
development_dependencies to use in development


decon_blastBTK:
  github: Aquatic-Symbiosis-Genomics-Project/BLAST-scripts

Readme

Built with Crystal CI Latest Release

BLAST-scripts

Scripts for automated blast searches from btk from downloaded tables with a selection. It will only blast the sequences selected in BTK.

releases

linux x86_64 crystal binary

Run like this:

bash decon_blastBTK.sh ASSEMBLY.FA BTK.CSV WORKDIRECTORY

or (the crystal version) ./decon_blastBTK -f ASSEMBLY.FA -b BTK.csv -o WORKDIRECTORY

Usage

For now, put in working dir:

  • get_scaffolds.py
  • multif_to_singlef.py
  • decon_blastBTK.sh
  • scaffold_assembly.fasta
  • btk.csv

or (for the crystal version)

  • decon_blastBTK
  • scaffold_assembly.fasta
  • btk.csv