.gitignore
LICENSE
README.md
Ultraplex User Guide.pdf
environment.yml
gif_logo.gif
logo2.png
setup.py
test_demux.fq.gz
ultraplex-full.png
ultraplex_demux_5bc_no_match_tmp_thread_0.fastq
uploading_to_servers.info
tests/all_simple_tests.readme
tests/test_simple/all_simple_tests.sh
tests/test_simple/barcodes_3nt_bc_789.csv
tests/test_simple/barcodes_5_and_3.csv
tests/test_simple/barcodes_5_and_3_named.csv
tests/test_simple/barcodes_5_and_3_some_named.csv
tests/test_simple/barcodes_5_and_3_very_long.csv
tests/test_simple/barcodes_5_and_3_very_long_barcode.csv
tests/test_simple/barcodes_5_and_3_very_very_long_umi.csv
tests/test_simple/barcodes_789_combined.csv
tests/test_simple/barcodes_different_umis.csv
tests/test_simple/barcodes_no_umi_3.csv
tests/test_simple/barcodes_sample123_wrong_5.csv
tests/test_simple/barcodes_sample3_wrong_3.csv
tests/test_simple/example_read_1.fastq.gz
tests/test_simple/example_read_2.fastq.gz
tests/test_simple/generate_simple_PE_fastq.py
tests/test_simple/reads1.fastq.gz
tests/test_simple/reads2.fastq.gz
ultraplex/__init__.py
ultraplex/__main__.py
ultraplex/_align.c
ultraplex/_align_new.c
ultraplex/_align_new.pyx
ultraplex/adapters.py
ultraplex/align.py
ultraplex/filters.py
ultraplex/log.py
ultraplex/modifiers.py
ultraplex/parser.py
ultraplex/pipeline.py
ultraplex/qualtrim.c
ultraplex/qualtrim_new.c
ultraplex/qualtrim_new.pyx
ultraplex/report.py
ultraplex/utils.py
ultraplex.egg-info/PKG-INFO
ultraplex.egg-info/SOURCES.txt
ultraplex.egg-info/dependency_links.txt
ultraplex.egg-info/entry_points.txt
ultraplex.egg-info/requires.txt
ultraplex.egg-info/top_level.txt