COPYING
COPYING.LESSER
MANIFEST.in
README.md
setup.py
genpipes/__init__.py
genpipes/__main__.py
genpipes/version.py
genpipes/bfx/__init__.py
genpipes/bfx/adapters.py
genpipes/bfx/amber.py
genpipes/bfx/annotations.py
genpipes/bfx/artic.py
genpipes/bfx/ballgown.py
genpipes/bfx/bamreadcount.py
genpipes/bfx/bash_cmd.py
genpipes/bfx/bcbio_variation_recall.py
genpipes/bfx/bcftools.py
genpipes/bfx/bed_file.py
genpipes/bfx/bedops.py
genpipes/bfx/bedtools.py
genpipes/bfx/bigwiginfo.py
genpipes/bfx/bismark.py
genpipes/bfx/bissnp.py
genpipes/bfx/blast.py
genpipes/bfx/blat.py
genpipes/bfx/breakseq2.py
genpipes/bfx/bvatools.py
genpipes/bfx/bwa.py
genpipes/bfx/bwakit.py
genpipes/bfx/chicago.py
genpipes/bfx/chromimpute.py
genpipes/bfx/circlator.py
genpipes/bfx/cnvkit.py
genpipes/bfx/cobalt.py
genpipes/bfx/conpair.py
genpipes/bfx/covseq_tools.py
genpipes/bfx/cufflinks.py
genpipes/bfx/cutadapt.py
genpipes/bfx/dada2.py
genpipes/bfx/deliverables.py
genpipes/bfx/delly.py
genpipes/bfx/design.py
genpipes/bfx/differential_binding.py
genpipes/bfx/differential_expression.py
genpipes/bfx/dna_damage.py
genpipes/bfx/epigeec.py
genpipes/bfx/epiqc_reports.py
genpipes/bfx/exonerate.py
genpipes/bfx/fastqc.py
genpipes/bfx/fgbio.py
genpipes/bfx/flash.py
genpipes/bfx/freebayes.py
genpipes/bfx/gatk.py
genpipes/bfx/gatk4.py
genpipes/bfx/gemini.py
genpipes/bfx/genome.py
genpipes/bfx/gq_seq_utils.py
genpipes/bfx/guppy.py
genpipes/bfx/hic.py
genpipes/bfx/hicplotter.py
genpipes/bfx/hicrep.py
genpipes/bfx/hicup.py
genpipes/bfx/homer.py
genpipes/bfx/htseq.py
genpipes/bfx/htslib.py
genpipes/bfx/igvtools.py
genpipes/bfx/ivar.py
genpipes/bfx/jsonator.py
genpipes/bfx/kraken2.py
genpipes/bfx/krona.py
genpipes/bfx/lumpy.py
genpipes/bfx/macs2.py
genpipes/bfx/manta.py
genpipes/bfx/metasv.py
genpipes/bfx/metric_tools.py
genpipes/bfx/metrics.py
genpipes/bfx/minimap2.py
genpipes/bfx/multiqc.py
genpipes/bfx/mummer.py
genpipes/bfx/ncovtools.py
genpipes/bfx/ngscheckmate.py
genpipes/bfx/pacbio_tools.py
genpipes/bfx/peddy.py
genpipes/bfx/picard.py
genpipes/bfx/picard2.py
genpipes/bfx/purple.py
genpipes/bfx/pycoqc.py
genpipes/bfx/qiime.py
genpipes/bfx/qualimap.py
genpipes/bfx/quasar_qc.py
genpipes/bfx/quast.py
genpipes/bfx/ray.py
genpipes/bfx/readset.py
genpipes/bfx/reporting.py
genpipes/bfx/rmarkdown.py
genpipes/bfx/robustad.py
genpipes/bfx/rrna_amplicons.py
genpipes/bfx/run_processing_aligner.py
genpipes/bfx/sambamba.py
genpipes/bfx/sample.py
genpipes/bfx/sample_tumor_pairs.py
genpipes/bfx/samtools.py
genpipes/bfx/scalpel.py
genpipes/bfx/scnaphase.py
genpipes/bfx/scones.py
genpipes/bfx/seq2fun.py
genpipes/bfx/sequence_dictionary.py
genpipes/bfx/sequenza.py
genpipes/bfx/shapeit.py
genpipes/bfx/signal_noise.py
genpipes/bfx/skewer.py
genpipes/bfx/smrtanalysis.py
genpipes/bfx/snpeff.py
genpipes/bfx/star.py
genpipes/bfx/strelka2.py
genpipes/bfx/stringtie.py
genpipes/bfx/svaba.py
genpipes/bfx/svim.py
genpipes/bfx/svtyper.py
genpipes/bfx/tools.py
genpipes/bfx/topdom.py
genpipes/bfx/tophat.py
genpipes/bfx/trimmomatic.py
genpipes/bfx/trinity.py
genpipes/bfx/trinotate.py
genpipes/bfx/ucsc.py
genpipes/bfx/vardict.py
genpipes/bfx/variantBam.py
genpipes/bfx/varscan.py
genpipes/bfx/vawk.py
genpipes/bfx/vcflib.py
genpipes/bfx/vcftools.py
genpipes/bfx/verify_bam_id.py
genpipes/bfx/vsearch.py
genpipes/bfx/vt.py
genpipes/bfx/wham.py
genpipes/bfx/wigSignalNoise.py
genpipes/bfx/wub.py
genpipes/core/__init__.py
genpipes/core/config.py
genpipes/core/job.py
genpipes/core/pipeline.py
genpipes/core/scheduler.py
genpipes/core/step.py
genpipes/pipelines/__init__.py
genpipes/pipelines/common.py
genpipes/pipelines/ampliconseq/__init__.py
genpipes/pipelines/ampliconseq/ampliconseq.py
genpipes/pipelines/chipseq/__init__.py
genpipes/pipelines/chipseq/chipseq.py
genpipes/pipelines/covseq/__init__.py
genpipes/pipelines/covseq/covseq.py
genpipes/pipelines/dnaseq/__init__.py
genpipes/pipelines/dnaseq/dnaseq.py
genpipes/pipelines/dnaseq_high_coverage/__init__.py
genpipes/pipelines/dnaseq_high_coverage/dnaseq_high_coverage.py
genpipes/pipelines/epiqc/__init__.py
genpipes/pipelines/epiqc/epiqc.py
genpipes/pipelines/hicseq/__init__.py
genpipes/pipelines/hicseq/hicseq.py
genpipes/pipelines/methylseq/__init__.py
genpipes/pipelines/methylseq/methylseq.py
genpipes/pipelines/nanopore/__init__.py
genpipes/pipelines/nanopore/nanopore.py
genpipes/pipelines/nanopore_covseq/__init__.py
genpipes/pipelines/nanopore_covseq/nanopore_covseq.py
genpipes/pipelines/rnaseq/__init__.py
genpipes/pipelines/rnaseq/rnaseq.py
genpipes/pipelines/rnaseq_denovo_assembly/__init__.py
genpipes/pipelines/rnaseq_denovo_assembly/rnaseq_denovo_assembly.py
genpipes/pipelines/rnaseq_light/__init__.py
genpipes/pipelines/rnaseq_light/rnaseq_light.py
genpipes/pipelines/tumor_pair/__init__.py
genpipes/pipelines/tumor_pair/tumor_pair.py
genpipes/utils/__init__.py
genpipes/utils/cancel_running_pipeline.py
genpipes/utils/ignstats.py
genpipes/utils/job2json.py
genpipes/utils/job2json_test.py
genpipes/utils/log_report.py
genpipes/utils/mugqicValidator.py
genpipes/utils/nanuq2mugqic_pipelines.py
genpipes/utils/utils.py
genpipes/utils/watch_portal_folder.py
genpipes_suite.egg-info/PKG-INFO
genpipes_suite.egg-info/SOURCES.txt
genpipes_suite.egg-info/dependency_links.txt
genpipes_suite.egg-info/entry_points.txt
genpipes_suite.egg-info/requires.txt
genpipes_suite.egg-info/top_level.txt