pixy 1.2.11.beta1

• Version bump

pixy 1.2.10.beta2

• Remove pre-release tag

1.2.10.beta1

• Version bump to trigger conda-build 🤷‍♂️

1.2.9.beta1

• Fix for new GATK missing data format: all GTs with DP<0 are coerced to missing. Addresses #78
• Fix for scan for variant sites: now a warning, and scans ahead 100kbp. Addresses #75 and #81

1.2.8.beta2

• Fix version number typo in help message

1.2.8.beta1

• Increase the number of sites to query for variant sites during initial validation (addresses #81)

pixy 1.2.7.beta1

• Updated the calculation of "count_missing" in pi calculations to reflect what is described in the documentation (addresses #59, thanks to Gabriele Sgarlata for identifying this issue)
• All other calculations unaffected

pixy 1.2.6.beta1

• Fixed issue with chromosomes being incorrectly filtered out when using a sites file, bed file, and purely numeric chromosome IDs (#55)

pixy 1.2.5.beta1

• Added major optimizations for single-site mode ("--window_size 1") when working with a sites file
• Output generated with a sites file now includes explicit NAs for windows within the (total) range of sites represented in the sites file
• Updated Figure 1 in the documentation to better match algorithm in software

pixy 1.2.4.beta1

• Fix for cases when aggregating over scaffolds have valid data for pi/dxy, but not for FST (#42)
• A message listing all the scaffolds where FST failed to be calculated is now printed (note that explicit missing rows are not included in the final FST file)