DEVELOPMENT.rst
HISTORY.rst
MANIFEST.in
README.rst
ROADMAP.rst
setup.py
readtagger/__init__.py
readtagger/allow_dovetailing.py
readtagger/annotate_contigs.py
readtagger/assemby_realignment.py
readtagger/bam_io.py
readtagger/bwa.py
readtagger/cap3.py
readtagger/cigar.py
readtagger/cluster.py
readtagger/cluster_base.py
readtagger/create_multisample_vcf.py
readtagger/dumb_consensus.py
readtagger/edlib_align.py
readtagger/extract_variants.py
readtagger/fasta_io.py
readtagger/filter_insertions.py
readtagger/find_softclip_clusters.py
readtagger/findcluster.py
readtagger/genotype.py
readtagger/gff_io.py
readtagger/instance_lru.py
readtagger/mateoperations.py
readtagger/normalization.py
readtagger/plot_coverage.py
readtagger/pysamtools_view.py
readtagger/readtagger.py
readtagger/summarize_fragments.py
readtagger/tag_softclip.py
readtagger/tagcluster.py
readtagger/tags.py
readtagger/targetsiteduplication.py
readtagger/update_mapq.py
readtagger/utils.py
readtagger/vcf_io.py
readtagger/verify.py
readtagger/write_supplementary_fastq.py
readtagger.egg-info/PKG-INFO
readtagger.egg-info/SOURCES.txt
readtagger.egg-info/dependency_links.txt
readtagger.egg-info/entry_points.txt
readtagger.egg-info/requires.txt
readtagger.egg-info/top_level.txt
readtagger/cli/__init__.py
readtagger/cli/add_matesequence.py
readtagger/cli/allow_dovetailing.py
readtagger/cli/annotate_softclipped_reads.py
readtagger/cli/classify_somatic_insertions.py
readtagger/cli/extract_variants.py
readtagger/cli/findcluster.py
readtagger/cli/merge_findcluster_vcf.py
readtagger/cli/normalize_readsizes.py
readtagger/cli/plot_coverage.py
readtagger/cli/pysamtools_view_cli.py
readtagger/cli/readtagger_cli.py
readtagger/cli/summarize_fragments.py
readtagger/cli/update_mapq.py
readtagger/cli/write_supplementary_fastq.py