LICENSE
MANIFEST.in
README.md
requirements.txt
setup.cfg
setup.py
metapi/__about__.py
metapi/__init__.py
metapi/aligner.py
metapi/assembler.py
metapi/binner.py
metapi/checkmer.py
metapi/classifier.py
metapi/configer.py
metapi/corer.py
metapi/database.py
metapi/predictor.py
metapi/qcer.py
metapi/sampler.py
metapi/simulator.py
metapi/tooler.py
metapi/uploader.py
metapi.egg-info/PKG-INFO
metapi.egg-info/SOURCES.txt
metapi.egg-info/dependency_links.txt
metapi.egg-info/entry_points.txt
metapi.egg-info/requires.txt
metapi.egg-info/top_level.txt
metapi/config/config.yaml
metapi/envs/align.yaml
metapi/envs/cdhit.yaml
metapi/envs/checkm.yaml
metapi/envs/concoct.yaml
metapi/envs/dastools.yaml
metapi/envs/deepvirfinder.yaml
metapi/envs/drep.yaml
metapi/envs/fastqc.yaml
metapi/envs/gtdbtk.yaml
metapi/envs/idbaud.yaml
metapi/envs/kneaddata.yaml
metapi/envs/kraken2.yaml
metapi/envs/maxbin2.yaml
metapi/envs/megahit.yaml
metapi/envs/metabat2.yaml
metapi/envs/multiqc.yaml
metapi/envs/phamb.yaml
metapi/envs/plass.yaml
metapi/envs/predict.yaml
metapi/envs/quast.yaml
metapi/envs/report.yaml
metapi/envs/simulate.yaml
metapi/envs/spades.yaml
metapi/envs/trimming.yaml
metapi/envs/vamb.yaml
metapi/envs/virsorter2.yaml
metapi/profiles/generic/cluster_config.yaml
metapi/profiles/generic/config.yaml
metapi/profiles/generic/key_mapping.yaml
metapi/profiles/generic/lsf_status.py
metapi/profiles/generic/pbs_status.py
metapi/profiles/generic/scheduler.py
metapi/profiles/generic/slurm_status.py
metapi/profiles/lsf/CookieCutter.py
metapi/profiles/lsf/OSLayer.py
metapi/profiles/lsf/config.yaml
metapi/profiles/lsf/lsf_config.py
metapi/profiles/lsf/lsf_jobscript.sh
metapi/profiles/lsf/lsf_status.py
metapi/profiles/lsf/lsf_submit.py
metapi/profiles/lsf/memory_units.py
metapi/profiles/pbs-torque/config.yaml
metapi/profiles/pbs-torque/pbs-jobscript.sh
metapi/profiles/pbs-torque/pbs-status.py
metapi/profiles/pbs-torque/pbs-submit.py
metapi/profiles/sge/cluster.yaml
metapi/profiles/sge/config.yaml
metapi/profiles/sge/sge-jobscript.sh
metapi/profiles/sge/sge-status.py
metapi/profiles/sge/sge-submit.py
metapi/profiles/slurm/CookieCutter.py
metapi/profiles/slurm/cluster.yaml
metapi/profiles/slurm/config.yaml
metapi/profiles/slurm/settings.json
metapi/profiles/slurm/slurm-jobscript.sh
metapi/profiles/slurm/slurm-status.py
metapi/profiles/slurm/slurm-submit.py
metapi/profiles/slurm/slurm_utils.py
metapi/rules/alignment.smk
metapi/rules/assembly.smk
metapi/rules/binning.smk
metapi/rules/binning_multisplit.smk
metapi/rules/binning_refine.smk
metapi/rules/binning_report.smk
metapi/rules/checkm.smk
metapi/rules/dereplicate_cds.smk
metapi/rules/dereplicate_mags.smk
metapi/rules/identify_multi.smk
metapi/rules/identify_single.smk
metapi/rules/predict_bins.smk
metapi/rules/predict_scaftigs.smk
metapi/rules/qcreport.smk
metapi/rules/raw.smk
metapi/rules/rmhost.smk
metapi/rules/simulate.smk
metapi/rules/taxonomic.smk
metapi/rules/trimming.smk
metapi/rules/upload.smk
metapi/snakefiles/gene_wf.smk
metapi/snakefiles/mag_wf.smk
metapi/visualization/dada2_stats_barplot.R
metapi/wrappers/concoct_postprocess.py
metapi/wrappers/dastools_postprocess.py
metapi/wrappers/maxbin2_postprocess.py
metapi/wrappers/misc.py
metapi/wrappers/prodigal_wrapper.py
metapi/wrappers/prokka_wrapper.py