148 lines
7.9 KiB
Plaintext
148 lines
7.9 KiB
Plaintext
@comment $NetBSD$
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etc/modulefiles/microbiomutil/${PKGVERSION}
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microbiomutil/AmosCmp16Spipeline/AmosPatch/AMOScmp
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microbiomutil/AmosCmp16Spipeline/LICENSE
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microbiomutil/AmosCmp16Spipeline/PyLib/CdbTools.py
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microbiomutil/AmosCmp16Spipeline/PyLib/CmdRunner.py
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microbiomutil/AmosCmp16Spipeline/PyLib/FastaReader.py
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microbiomutil/AmosCmp16Spipeline/PyLib/contig_layout_to_scaffold.py
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microbiomutil/AmosCmp16Spipeline/PyLib/contig_layout_to_scaffold.pyc
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microbiomutil/AmosCmp16Spipeline/PyLib/homology_trim_lucy_output.py
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microbiomutil/AmosCmp16Spipeline/PyLib/homology_trim_lucy_output.pyc
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microbiomutil/AmosCmp16Spipeline/README
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microbiomutil/AmosCmp16Spipeline/__conf.txt
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microbiomutil/AmosCmp16Spipeline/amosCmp16Spipeline.py
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microbiomutil/AmosCmp16Spipeline/conf.txt
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microbiomutil/AmosCmp16Spipeline/sample_data/HMP_MOCK_16S_references.fasta
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microbiomutil/AmosCmp16Spipeline/sample_data/HMP_MOCK_16S_references.fasta.cidx
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microbiomutil/AmosCmp16Spipeline/sample_data/HMP_MOCK_16S_references.fasta.nhr
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microbiomutil/AmosCmp16Spipeline/sample_data/HMP_MOCK_16S_references.fasta.nin
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microbiomutil/AmosCmp16Spipeline/sample_data/HMP_MOCK_16S_references.fasta.nsq
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.fasta
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.fasta.asm.log
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.fasta.asm.quals
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.fasta.asm.seqs
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.fasta.cidx
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.pairs
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.quals
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microbiomutil/AmosCmp16Spipeline/sample_data/reads.quals.cidx
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microbiomutil/AmosCmp16Spipeline/sample_data/runMe.sh
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microbiomutil/ChimeraSlayer/ChimeraParentSelector/CM_plotter.pl
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microbiomutil/ChimeraSlayer/ChimeraParentSelector/CPC_to_CPS.pl
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microbiomutil/ChimeraSlayer/ChimeraParentSelector/CPS_to_RENAST.pl
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microbiomutil/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl
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microbiomutil/ChimeraSlayer/ChimeraParentSelector/run_chimeraParentSelector.pl
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microbiomutil/ChimeraSlayer/ChimeraPhyloChecker/CPS_to_CPC.pl
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microbiomutil/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl
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microbiomutil/ChimeraSlayer/ChimeraSlayer.pl
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microbiomutil/ChimeraSlayer/LICENSE
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microbiomutil/ChimeraSlayer/Makefile
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microbiomutil/ChimeraSlayer/PerlLib/AlignCompare.pm
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microbiomutil/ChimeraSlayer/PerlLib/BHStats.pm
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microbiomutil/ChimeraSlayer/PerlLib/CdbTools.pm
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microbiomutil/ChimeraSlayer/PerlLib/Fasta_reader.pm
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microbiomutil/ChimeraSlayer/PerlLib/NAST_to_Eco_coords.pm
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microbiomutil/ChimeraSlayer/PerlLib/TaxonomyGraph.pm
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microbiomutil/ChimeraSlayer/__BroadBellerophon/BellerophonGG.pl
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microbiomutil/ChimeraSlayer/__BroadBellerophon/masks/eco.prokMSA
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microbiomutil/ChimeraSlayer/__BroadBellerophon/masks/lanemask.NAST
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microbiomutil/ChimeraSlayer/__BroadBellerophon/run_bellerophon_prog.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/NAST_evolve.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/PerID_Pairs_All_vs_All.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/PerID_Pairs_via_Taxonomy.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/ROC_writer.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/SeqSubstrates/rRNA16S.toChimerize.PerID_compare
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/SeqSubstrates/rRNA16S.toChimerize.fasta
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/SeqSubstrates/rRNA16S.toChimerize.fasta.NAST
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/SeqSubstrates/rRNA16S.toChimerize.taxonomy
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/art_chimera_constructor.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/chimera_control_extractor.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/simple_art_chimera_constructor.pl
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microbiomutil/ChimeraSlayer/__ChimeraConstructorToolkit/write_100_chimeras_per_div.pl
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microbiomutil/ChimeraSlayer/__KmerChimerDetector/KmerChimerDetector.pl
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microbiomutil/ChimeraSlayer/sample_data/Makefile
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microbiomutil/ChimeraSlayer/sample_data/chims.NAST
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microbiomutil/ChimeraSlayer/sample_data/runMe.sh
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microbiomutil/ChimeraSlayer/util/CMCS_to_treeImg.pl
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microbiomutil/ChimeraSlayer/util/CS_add_taxonomy.pl
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microbiomutil/ChimeraSlayer/util/breakpoint_to_profile.pl
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microbiomutil/ChimeraSlayer/util/merge_CM_CS_outputs.pl
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microbiomutil/ChimeraSlayer/util/merge_CS_n_CM_breakpoints.pl
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microbiomutil/NAST-iEr/LICENSE
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microbiomutil/NAST-iEr/Makefile
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microbiomutil/NAST-iEr/NAST-iEr
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microbiomutil/NAST-iEr/NAST-iEr.c
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microbiomutil/NAST-iEr/PerlLib/CdbTools.pm
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microbiomutil/NAST-iEr/PerlLib/Fasta_reader.pm
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microbiomutil/NAST-iEr/PerlLib/Nuc_translator.pm
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microbiomutil/NAST-iEr/README
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microbiomutil/NAST-iEr/iterative_refinement/compare_DBs.pl
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microbiomutil/NAST-iEr/iterative_refinement/iteratively_realign_db_selfsearch.pl
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microbiomutil/NAST-iEr/iterative_refinement/quant_differences.pl
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microbiomutil/NAST-iEr/run_NAST-iEr.pl
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microbiomutil/NAST-iEr/sample_data/Makefile
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microbiomutil/NAST-iEr/sample_data/formatdb.log
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microbiomutil/NAST-iEr/sample_data/query_seq.fasta
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microbiomutil/NAST-iEr/sample_data/runMe.sh
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microbiomutil/NAST-iEr/sample_data/template_seqs.NAST
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microbiomutil/NAST-iEr/sample_data/testForUtils.pl
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microbiomutil/NAST-iEr/util/apply_NAST_MASK.pl
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microbiomutil/NAST-iEr/util/masks/eco.prokMSA
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microbiomutil/NAST-iEr/util/masks/lanemask.NAST
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microbiomutil/NAST-iEr/util/mfasta_remove_allGapCols.pl
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microbiomutil/NAST-iEr/util/mfasta_remove_gaps.pl
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microbiomutil/NAST-iEr/util/show_malign_no_gap.pl
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microbiomutil/NAST-iEr/util/show_malign_no_gap_no_identical_cols.pl
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microbiomutil/RESOURCES/Makefile
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microbiomutil/RESOURCES/RDP/classifier_data_dir/bergeyTrainingTree.xml
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microbiomutil/RESOURCES/RDP/classifier_data_dir/genus_wordConditionalProbList.txt
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microbiomutil/RESOURCES/RDP/classifier_data_dir/logWordPrior.txt
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microbiomutil/RESOURCES/RDP/classifier_data_dir/rRNAClassifier.properties
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microbiomutil/RESOURCES/RDP/classifier_data_dir/wordConditionalProbIndexArr.txt
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microbiomutil/RESOURCES/RDP/util/RDP_tack_classification_onto_fasta_header.pl
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microbiomutil/RESOURCES/RDP/util/RDP_to_tab.pl
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microbiomutil/RESOURCES/README
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microbiomutil/RESOURCES/accs
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microbiomutil/RESOURCES/formatdb.log
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microbiomutil/RESOURCES/identify_conflicting_taxons.pl
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microbiomutil/RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta
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microbiomutil/RESOURCES/rRNA16S.gold.fasta
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microbiomutil/RESOURCES/rRNA16S.gold.taxonomy
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microbiomutil/RESOURCES/results
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microbiomutil/TreeChopper/LICENSE
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microbiomutil/TreeChopper/README.txt
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microbiomutil/TreeChopper/sample_data/2percent.OTUs
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microbiomutil/TreeChopper/sample_data/2percent.j0.7.OTUs
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microbiomutil/TreeChopper/sample_data/mockref.RDPNAST.tree
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microbiomutil/TreeChopper/sample_data/output_0.02_0.7.OTUs
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microbiomutil/TreeChopper/sample_data/runMe.sh
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microbiomutil/TreeChopper/treeChopper.pl
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microbiomutil/TreeChopper/util/print.pl
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microbiomutil/TreeChopper/util/slclust
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microbiomutil/TreeChopper/util/tree_leaf_pairs_within_dist.pl
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microbiomutil/TreeChopper/util/tree_report_nodes.pl
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microbiomutil/WigeoN/LICENSE
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microbiomutil/WigeoN/Makefile
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microbiomutil/WigeoN/PerlLib/BHStats.pm
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microbiomutil/WigeoN/PerlLib/CdbTools.pm
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microbiomutil/WigeoN/PerlLib/Fasta_reader.pm
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microbiomutil/WigeoN/README
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microbiomutil/WigeoN/WigeoN.pl
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microbiomutil/WigeoN/data/DE_quantiles.dat
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microbiomutil/WigeoN/data/WigeoN.AllVsAllReferences.txt.gz
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microbiomutil/WigeoN/data/eco.prokMSA
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microbiomutil/WigeoN/data/rRNA16S.gold.NAST_ALIGNED.fasta.cons
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microbiomutil/WigeoN/run_CM_to_WigeoN.pl
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microbiomutil/WigeoN/run_WigeoN.pl
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microbiomutil/WigeoN/sample_data/Makefile
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microbiomutil/WigeoN/sample_data/chims.NAST
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microbiomutil/WigeoN/sample_data/runMe.sh
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microbiomutil/WigeoN/util/all_vs_all_WigeoN.mod.pl
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microbiomutil/WigeoN/util/all_vs_all_WigeoN.pl
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microbiomutil/WigeoN/util/apply_eco_Mask.pl
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microbiomutil/WigeoN/util/compute_quant_bins.pl
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microbiomutil/WigeoN/util/eco.prokMSA
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microbiomutil/WigeoN/util/eco_nast_freq.pl
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microbiomutil/WigeoN/util/makeConservationProfile.pl
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microbiomutil/WigeoN/util/smooth.pl
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