MANIFEST.in
README.md
config_local.yaml
environment.yaml
pyproject.toml
setup.cfg
setup.py
snakemake_helper_functions.py
spacemake/__init__.py
spacemake/alnstats.py
spacemake/cmdline_utils.py
spacemake/errors.py
spacemake/parallel.py
spacemake/preprocess.py
spacemake/reporting.py
spacemake/smk.py
spacemake/util.py
spacemake.egg-info/PKG-INFO
spacemake.egg-info/SOURCES.txt
spacemake.egg-info/dependency_links.txt
spacemake.egg-info/entry_points.txt
spacemake.egg-info/not-zip-safe
spacemake.egg-info/top_level.txt
spacemake/config/config.yaml
spacemake/config/species_data_url.yaml
spacemake/data/visium_barcode_positions.csv
spacemake/snakemake/downsample.smk
spacemake/snakemake/dropseq.smk
spacemake/snakemake/main.smk
spacemake/snakemake/merge_samples.smk
spacemake/snakemake/pacbio.smk
spacemake/snakemake/species_init.smk
spacemake/snakemake/visium.smk
spacemake/snakemake/scripts/automated_analysis.py
spacemake/snakemake/scripts/automated_analysis_create_processed_data_files.py
spacemake/snakemake/scripts/automated_analysis_create_report.Rmd
spacemake/snakemake/scripts/clean_top_barcodes.py
spacemake/snakemake/scripts/create_sample_db.R
spacemake/snakemake/scripts/create_sample_overview.Rmd
spacemake/snakemake/scripts/filter_mm_reads.py
spacemake/snakemake/scripts/fix_bam_header.py
spacemake/snakemake/scripts/kmer_stats_from_fastq.py
spacemake/snakemake/scripts/parse_ribo_log.py
spacemake/snakemake/scripts/qc_sequencing_create_parameters_from_sample_sheet.py
spacemake/snakemake/scripts/qc_sequencing_create_sheet.Rmd
spacemake/snakemake/scripts/saturation_analysis.Rmd
spacemake/snakemake/scripts/shared_functions.R
spacemake/snakemake/scripts/snakemake_helper_functions.py
spacemake/snakemake/scripts/split_reads_by_strand_info.py