v0.8.9

Changelog v0.8.9 (2023/05/29)

• switched internally to plink2 for conversion of .vcf files to .bed format due to better handling of duplicate IDs created by missing variant IDs
• updated package dependencies
• vcf2gwas now also correctly recognizes chromosome numbers >24 if chromosomes are missing in .vcf file
• bug fixed where .vcf file was not filtered with correct minor allele frequency
• minor bug fixes
• check for a vcf index before indexing by @kdm9 in #26
• update utils.py by @alesha92 in #27

Full Changelog: v0.8.8...v0.8.9

v0.8.8

Changelog v0.8.8 (2022/11/25)

• vcf2gwas can now be run multiple times simultaneously in the same directory
• bug fixed where multivariate analysis was only using the first selected phenotype
• reverted naming convention for some sub-directories and output files to exclude certain symbols

Full Changelog: v0.8.7...v0.8.8

v0.8.7

Changelog v0.8.7 (2022/04/29)

• vcf2gwas is now available as docker image (for more information check the readme and manual)
• small color changes for the plots

Full Changelog: v0.8.6...v0.8.7

v0.8.6

Changelog v0.8.6 (2022/02/06)

• improved plink integration to work better for certain VCF files

Full Changelog: v0.8.5...v0.8.6

v0.8.5

Changelog v0.8.5 (2022/01/23)

• Added -t / --transform option to transform phenotypes prior to analysis
• Changed -t / --topsnp option to -ts / --topsnp
• plink now also works when contig number > 95
• Miscellaneous improvements and fixes
• Improved GEMMA error handling when analysing multiple phenotypes
• Improved error messaging

Full Changelog: v0.8.4...v0.8.5

v0.8.4

Full Changelog: https://github.com/frankvogt/vcf2gwas/commits/v0.8.4