LICENSE
README.md
setup.py
paraphase/__init__.py
paraphase/__main__.py
paraphase/genome_depth.py
paraphase/haplotype_assembler.py
paraphase/paraphase.py
paraphase/phaser.py
paraphase/prepare_bam_and_vcf.py
paraphase.egg-info/PKG-INFO
paraphase.egg-info/SOURCES.txt
paraphase.egg-info/dependency_links.txt
paraphase.egg-info/entry_points.txt
paraphase.egg-info/requires.txt
paraphase.egg-info/top_level.txt
paraphase/data/genes.yaml
paraphase/data/19/config.yaml
paraphase/data/19/genome_region.bed
paraphase/data/19/sex_region.bed
paraphase/data/19/rccx/cyp21_diff_sites.txt
paraphase/data/19/smn1/known_haplotypes.json
paraphase/data/38/config.yaml
paraphase/data/38/fusion_genes.json
paraphase/data/38/genome_region.bed
paraphase/data/38/sex_region.bed
paraphase/data/38/rccx/cyp21_diff_sites.txt
paraphase/data/38/smn1/known_haplotypes.json
paraphase/data/chm13/config.yaml
paraphase/data/chm13/genome_region.bed
paraphase/data/chm13/sex_region.bed
paraphase/data/chm13/smn1/known_haplotypes.json
paraphase/genes/__init__.py
paraphase/genes/cfc1_phaser.py
paraphase/genes/cfhclust.py
paraphase/genes/f8_phaser.py
paraphase/genes/hba_phaser.py
paraphase/genes/ikbkg_phaser.py
paraphase/genes/ncf1_phaser.py
paraphase/genes/neb_phaser.py
paraphase/genes/opn1lw_phaser.py
paraphase/genes/pms2_phaser.py
paraphase/genes/rccx_phaser.py
paraphase/genes/smn1_phaser.py
paraphase/genes/strc_phaser.py
tests/test_f8_phaser.py
tests/test_haplotype_assembler.py
tests/test_opn1lw_phaser.py
tests/test_paraphase.py
tests/test_phaser.py
tests/test_prepare_bam_and_vcf.py
tests/test_rccx_phaser.py
tests/test_smn1_phaser.py