Find amino acid substitutions from SNPs and run PROVEAN to estimate functional severity
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README.md

README.md

Find amino acid substitutions

Use find-aa-substitutions.pl to identify amino acid substitutions.

Requirements:

  • SNP files
  • GFF3 file
  • Genomic FASTA reference file

Run PROVEAN

Use run-provean.pl to determine the putative functional severity of the amino acid changes.

Requirements:

  • Amino acid substitution files
  • CDS FASTA reference file
  • PROVEAN installation

Filter PROVEAN results

Use filter-provean-results.pl to filter PROVEAN results for a single gene, a file containing a list of genes, or all genes within a genomic range.

Version 0.4.0