Releases: btmartin721/SNPio
Releases · btmartin721/SNPio
Version 1.0.4
Version 1.0.4 (2023-09-10)
Features
- Added functionality to filter out linked SNPs using CHROM and POS fields from VCF file.
Performance
- Made the Sankey plot function more modular and dynamic.
Bug Fixes
- Fix spacing between printed STDOUT.
Version 1.0.3.3
- Fix bug where VCF file CHROM strings were cut off after 10 characters.
Version 1.0.3.1
Version 1.0.3 (2023-08-27)
Features
- Performance improvements for VCF files.
- Load and write VCF file in chunks of loci to improve memory consumption.
- New output directory structure for better organization.
- VCF file attributes are now written to an HDF5 file instead of all being loaded into memory.
- Increased usage of numpy to improve VCF IO.
- Added AF INFO field when converting PHYLIP or STRUCTURE files to VCF format.
- VCF file reading uses pysam instead of cyvcf2 now.
Bug Fixes
- Fixed bug with
search_threshold
plots where the x-axis values would be sorted as strings instead of integers. - Fixed bugs where sampleIDs were out of order for VCF files.
- Ensured correct order for all objects.
- Fixed bugs when subsetting with popmaps files.
- Fixed to documentation.
Version 1.0.1.0.0
Update docs
Version 1.0.1.0
Update docs
Version 1.0.1
- Switched to cyvcf2 instead of scikit-allel because scikit-allel wouldn't compile on Mac.
- Updated documentation