Files in LiuzLab/TraceQC
Quality Control of CRISPR Lineage Tracing Seqence Data
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/circular_plots.R
R/mutation_events.R
R/sequence_alignment.R
R/single_cell.R
R/summary_plots.R
R/util.R
README.md
TraceQC_1.0.1.pdf
docs/tutorial.html
docs/tutorial_sc.html
inst/Rmd/tutorial.Rmd
inst/Rmd/tutorial.html
inst/Rmd/tutorial_sc.Rmd
inst/Rmd/tutorial_sc.html
inst/extdata/test_data/mutation.txt
inst/extdata/test_data/raw_sequence/carlin_example.bam
inst/extdata/test_data/raw_sequence/hgRNA_example.fastq.gz
inst/extdata/test_data/ref/ref_carlin.txt
inst/extdata/test_data/ref/ref_hgRNA_invitro.txt
inst/py/alignment.py
inst/py/alignment_for_10x.py
inst/py/sequence_alignment_threshold.py
man/TraceQC.Rd
man/build_binary_table.Rd
man/create_TraceQC_object.Rd
man/create_obj_list.Rd
man/example_obj.Rd
man/example_obj_list.Rd
man/fastqc.file.Rd
man/generate_qc_report.Rd
man/generate_qc_report_from_obj.Rd
man/get_qcpath.Rd
man/install_external_packages.Rd
man/mutation_type.Rd
man/plot_mutation_pattern_lineplot.Rd
man/plot_mutation_pattern_violinplot.Rd
man/plot_phylogenetic_tree.Rd
man/plot_point_mutation_hotspot.Rd
man/sequnce_alignment_threshold.Rd
man/table_to_phyDat.Rd
