MANIFEST.in
README.rst
setup.py
bin/admixture
bin/beagle.jar
bin/beagle_old.jar
bin/picard.jar
bin/plink
bin/plink2
bin/shapeit
pgpipe/__init__.py
pgpipe/admixtools.py
pgpipe/admixture.py
pgpipe/argparse_sets.py
pgpipe/bcftools.py
pgpipe/beagle.py
pgpipe/bed_invert.py
pgpipe/bed_tasks.py
pgpipe/bedtools.py
pgpipe/convert.py
pgpipe/eigenstrat_fstats.py
pgpipe/extend_loci.py
pgpipe/fasta.py
pgpipe/fasta_utilities.py
pgpipe/filter_single_vcf.py
pgpipe/four_gamete.py
pgpipe/genome_region.py
pgpipe/get_nonmissing_chunks.py
pgpipe/graph_plotter.py
pgpipe/ima3_wrapper.py
pgpipe/ima_priors.py
pgpipe/ima_to_treemix.py
pgpipe/informative_loci_filter.py
pgpipe/logging_module.py
pgpipe/min_pop_filter.py
pgpipe/model.py
pgpipe/model_creator.py
pgpipe/model_sampler.py
pgpipe/parse_functions.py
pgpipe/picard.py
pgpipe/plink.py
pgpipe/plink_ld.py
pgpipe/shapeit.py
pgpipe/site_stats.py
pgpipe/stat_sampler.py
pgpipe/subtract_bed.py
pgpipe/test_cython.c
pgpipe/test_cython.pyx
pgpipe/vcf_calc.py
pgpipe/vcf_filter.py
pgpipe/vcf_filter_bcftools.py
pgpipe/vcf_filter_vcftools.py
pgpipe/vcf_liftover.py
pgpipe/vcf_phase.py
pgpipe/vcf_reader_func.py
pgpipe/vcf_ref_to_seq.py
pgpipe/vcf_sampler.py
pgpipe/vcf_split.py
pgpipe/vcf_split_pysam.py
pgpipe/vcf_to_ima.py
pgpipe/vcf_to_treemix.py
pgpipe/vcf_utilities.py
pgpipe/vcftools.py
py_popgen.egg-info/PKG-INFO
py_popgen.egg-info/SOURCES.txt
py_popgen.egg-info/dependency_links.txt
py_popgen.egg-info/requires.txt
py_popgen.egg-info/top_level.txt