MANIFEST.in
README.rst
setup.py
kocher_tools/__init__.py
kocher_tools/alignment.py
kocher_tools/assignment.py
kocher_tools/backup.py
kocher_tools/barcode.py
kocher_tools/barcode_filter.py
kocher_tools/barcode_pipeline.py
kocher_tools/blast.py
kocher_tools/calc_MK.py
kocher_tools/calc_fst.py
kocher_tools/calc_pbs.py
kocher_tools/calc_pca.py
kocher_tools/collection.py
kocher_tools/common.py
kocher_tools/compress.py
kocher_tools/config_file.py
kocher_tools/create_database.py
kocher_tools/database.py
kocher_tools/deML.py
kocher_tools/demultiplex_paired_barcodes.py
kocher_tools/demultiplex_pipeline.py
kocher_tools/fastq_multx.py
kocher_tools/gff.py
kocher_tools/gff_add_features.py
kocher_tools/gff_chrom_stats.py
kocher_tools/gff_position_stats.py
kocher_tools/insert_file.py
kocher_tools/kocher_database.py
kocher_tools/location.py
kocher_tools/logger.py
kocher_tools/mafft.py
kocher_tools/misc.py
kocher_tools/model.py
kocher_tools/multiplex.py
kocher_tools/nstats.py
kocher_tools/output.py
kocher_tools/plink2.py
kocher_tools/retrieve_samples.py
kocher_tools/storage.py
kocher_tools/upload_samples.py
kocher_tools/vsearch.py
kocher_tools.egg-info/PKG-INFO
kocher_tools.egg-info/SOURCES.txt
kocher_tools.egg-info/dependency_links.txt
kocher_tools.egg-info/requires.txt
kocher_tools.egg-info/top_level.txt
kocher_tools/data/i7_map.txt
tests/test_files/TestPipeline.tar.gz
tests/test_files/testDB.sqlite
tests/test_files/testDB.yml
tests/test_files/testDB_large.sqlite
tests/test_files/testDB_large.yml
tests/test_files/test_barcode_01_input.fasta
tests/test_files/test_barcode_01_input.json
tests/test_files/test_barcode_01_input.out
tests/test_files/test_barcode_02_input.fasta
tests/test_files/test_barcode_02_input.json
tests/test_files/test_barcode_02_input.out
tests/test_files/test_barcode_BLAST_filtered.out
tests/test_files/test_barcode_BLAST_filtered_failures.json
tests/test_files/test_barcode_BLAST_filtered_passed.out
tests/test_files/test_barcode_BLAST_unsorted.out
tests/test_files/test_barcode_filter_1.csv
tests/test_files/test_barcode_filter_2.csv
tests/test_files/test_blast_BLAST.out
tests/test_files/test_blast_BLAST_header.out
tests/test_files/test_blast_common.fasta
tests/test_files/test_collection_01_ignore.tsv
tests/test_files/test_collection_01_input.tsv
tests/test_files/test_collection_02_input.tsv
tests/test_files/test_fastq_multx_map.txt
tests/test_files/test_location_01_input.tsv
tests/test_files/test_location_02_input.tsv
tests/test_files/test_location_03_input.tsv
tests/test_files/test_location_04_input.tsv
tests/test_files/test_output_1_expected_output.tsv
tests/test_files/test_pipeline_i5_map.txt
tests/test_files/test_pipeline_read_1.fastq.gz
tests/test_files/test_pipeline_read_2.fastq.gz
tests/test_files/test_pipeline_read_3.fastq.gz
tests/test_files/test_pipeline_read_4.fastq.gz
tests/test_files/test_retrieve_samples_retrieved_1.out
tests/test_files/test_storage_01_input.tsv
tests/test_files/test_storage_02_input.tsv
tests/test_files/test_vsearch_clustered.fasta.gz
tests/test_files/test_vsearch_clustered_to_sort.fasta.gz
tests/test_files/test_vsearch_demultiplexed_R1.fastq.gz
tests/test_files/test_vsearch_demultiplexed_R2.fastq.gz
tests/test_files/test_vsearch_dereplicated.fasta.gz
tests/test_files/test_vsearch_filtered.fasta.gz
tests/test_files/test_vsearch_merged.fastq.gz
tests/test_files/test_vsearch_notmerged_R1.fastq.gz
tests/test_files/test_vsearch_notmerged_R2.fastq.gz
tests/test_files/test_vsearch_sorted_clustered.fasta.gz
tests/test_files/test_vsearch_stripped.fastq.gz
tests/test_files/TestDB/TestDB.fasta
tests/test_files/TestDB/TestDB.fasta.nhr
tests/test_files/TestDB/TestDB.fasta.nin
tests/test_files/TestDB/TestDB.fasta.nsq