LICENSE.txt
README.md
setup.py
paraphase/__init__.py
paraphase/genome_depth.py
paraphase/haplotype_assembler.py
paraphase/paraphase.py
paraphase/phaser.py
paraphase/prepare_bam_and_vcf.py
paraphase/smn_phaser.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/genome_region.bed
paraphase/data/smn1/config.yaml
paraphase/data/smn1/homopolymer_sites.txt
paraphase/data/smn1/known_haplotypes.json
paraphase/data/smn1/ref.fa
paraphase/data/smn1/ref.fa.fai
paraphase/data/smn1/ref_smn2.fa
paraphase/data/smn1/ref_smn2.fa.fai
paraphase/data/smn1/smn_matching_pos.txt