MANIFEST.in
README.md
setup.py
tests/test_skipHostRm.py
tests/test_trimnami.py
trimnami/__init__.py
trimnami/__main__.py
trimnami/trimnami.CITATION
trimnami/trimnami.LICENSE
trimnami/trimnami.VERSION
trimnami.egg-info/PKG-INFO
trimnami.egg-info/SOURCES.txt
trimnami.egg-info/dependency_links.txt
trimnami.egg-info/entry_points.txt
trimnami.egg-info/requires.txt
trimnami.egg-info/top_level.txt
trimnami/config/config.yaml
trimnami/config/system_config.yaml
trimnami/scripts/__init__.py
trimnami/scripts/skipHostRm.py
trimnami/test_data/A13-04-182-06_TAGCTT_R1.fastq.gz
trimnami/test_data/A13-04-182-06_TAGCTT_R2.fastq.gz
trimnami/test_data/A13-12-250-06_GGCTAC_R1_001.fastq.gz
trimnami/test_data/A13-12-250-06_GGCTAC_R2_001.fastq.gz
trimnami/test_data/A13-135-177-06_AGTTCC.fastq
trimnami/test_data/ref.fna
trimnami/test_data/nanopore/SRR7947171.fastq.gz
trimnami/test_data/nanopore/SRR7947176.fastq.gz
trimnami/workflow/Snakefile
trimnami/workflow/databases/nebnext_adapters.fa
trimnami/workflow/databases/primerB.fa
trimnami/workflow/databases/rc_primerB_ad6.fa
trimnami/workflow/databases/vector_contaminants.fa
trimnami/workflow/envs/bbmap.yaml
trimnami/workflow/envs/fastp.yaml
trimnami/workflow/envs/filtlong.yaml
trimnami/workflow/envs/minimap2.yaml
trimnami/workflow/envs/pigz.yaml
trimnami/workflow/envs/prinseq.yaml
trimnami/workflow/envs/rasusa.yaml
trimnami/workflow/rules/fastp.smk
trimnami/workflow/rules/hostRemoval.smk
trimnami/workflow/rules/nanopore.smk
trimnami/workflow/rules/notrim.smk
trimnami/workflow/rules/preflight.smk
trimnami/workflow/rules/prinseq.smk
trimnami/workflow/rules/reports.smk
trimnami/workflow/rules/roundAB.smk