LICENSE
MANIFEST.in
README.md
setup.py
AlignQC.egg-info/PKG-INFO
AlignQC.egg-info/SOURCES.txt
AlignQC.egg-info/dependency_links.txt
AlignQC.egg-info/entry_points.txt
AlignQC.egg-info/requires.txt
AlignQC.egg-info/top_level.txt
alignqc/__init__.py
alignqc/alignqc.py
alignqc/analyze.py
alignqc/annotate_from_genomic_features.py
alignqc/annotated_length_analysis.py
alignqc/annotated_read_bias_analysis.py
alignqc/bam_preprocess.py
alignqc/bam_to_alignment_error_plot.py
alignqc/bam_to_chr_lengths.py
alignqc/bam_to_context_error_plot.py
alignqc/compare.py
alignqc/create_html.py
alignqc/depth_to_coverage_report.py
alignqc/dump.py
alignqc/get_depth_subset.py
alignqc/get_platform_report.py
alignqc/gpd_annotation_to_rarefraction.py
alignqc/gpd_loci_analysis.py
alignqc/gpd_to_exon_distro.py
alignqc/gpd_to_junction_variance.py
alignqc/locus_bed_to_rarefraction.py
alignqc/make_alignment_plot.py
alignqc/make_solo_html.py
alignqc/plot_alignment_errors.r
alignqc/plot_annotated_features.r
alignqc/plot_annotation_analysis.r
alignqc/plot_annotation_rarefractions.r
alignqc/plot_base_error_context.r
alignqc/plot_bias.r
alignqc/plot_chr_depth.r
alignqc/plot_depthmap.r
alignqc/plot_exon_distro.r
alignqc/plot_feature_depth.r
alignqc/plot_gapped_alignment_statistics.r
alignqc/plot_junvar.r
alignqc/plot_pacbio.r
alignqc/plot_transcript_lengths.r
alignqc/prepare_all_data.py
alignqc/traverse_preprocessed.py
alignqc/data/mystyle.css
scripts/alignqc_annotation_to_bed_depth.py
scripts/alignqc_to_novel_transcriptome.py
scripts/alignqcs_to_read_lengths.py
scripts/alignqcs_to_read_type_count_per_cell_statistics.py
scripts/classify_reads.py