Core-SNP-filterA tool to filter sites in a FASTA-format whole-genome pseudo-alignment based on variability and conservation.Versions

v0.2.0 (default)

Tags: SNP, alignment, filteringParameters

input_fasta (file) required: Input aligned FASTA file.

core_fraction (float) required: Minimum fraction of sequences that must have an unambiguous base at a site for it to be included (0.0 to 1.0).

exclude_invariant (bool): Exclude invariant sites from the alignment.

Links

License: GPL-3.0

Open Core-SNP-filter in the CPG Portal. Configuring and running a tool needs JavaScript.