Files in LieberInstitute/megadepth
megadepth: BigWig and BAM related utilities
.Rbuildignore
.github/.gitignore
.github/CODE_OF_CONDUCT.md
.github/CONTRIBUTING.md
.github/ISSUE_TEMPLATE/feature_request_template.md
.github/ISSUE_TEMPLATE/issue_template.md
.github/SUPPORT.md
.github/workflows/check-bioc.yml
.gitignore
DESCRIPTION
INSTALL
NAMESPACE
NEWS.md
R/bam_to_bigwig.R
R/bam_to_junctions.R
R/get_coverage.R
R/globals.R
R/install.R
R/megadepth.R
R/prefix_utils.R
R/read_coverage.R
R/read_junction.R
R/utils.R
README.Rmd
README.md
analysis/md_rt_pybw_runtime.png
analysis/test_megadepth_pyBigWig_rtracklayer.Rmd
analysis/test_pyBigWig.py
codecov.yml
dev/01_create_pkg.R
dev/02_git_github_setup.R
dev/03_core_files.R
dev/04_update.R
dev/05_setup_tests.R
inst/CITATION
inst/tests/long_reads.bam
inst/tests/test.bam
inst/tests/test.bam.all.bw
inst/tests/test.bam.bai
inst/tests/test2.bam
inst/tests/test3.bam
inst/tests/test_exons.bed
inst/tests/test_output_files/test.bam.all.bw
inst/tests/test_output_files/test.bam.alts.tsv
inst/tests/test_output_files/test.bam.annotation.tsv
inst/tests/test_output_files/test.bam.ends.tsv
inst/tests/test_output_files/test.bam.frags.tsv
inst/tests/test_output_files/test.bam.softclip.tsv
inst/tests/test_output_files/test.bam.starts.tsv
inst/tests/test_output_files/test.bam.unique.bw
inst/tests/test_output_files/test.bam.unique.tsv
inst/tests/testbw2.bed
man/bam_to_bigwig.Rd
man/bam_to_junctions.Rd
man/get_coverage.Rd
man/install_megadepth.Rd
man/megadepth_cmd.Rd
man/process_junction_table.Rd
man/read_coverage.Rd
man/read_junction_table.Rd
pkgdown/extra.css
tests/testthat.R
tests/testthat/test-bam_to_bigwig.R
tests/testthat/test-bam_to_junctions.R
tests/testthat/test-get_coverage.R
tests/testthat/test-install_megadepth.R
tests/testthat/test-megadepth_main_tests.R
tests/testthat/test-process_junction_table.R
tests/testthat/test-read_junction.R
vignettes/.gitignore
vignettes/megadepth.Rmd
