Files in russHyde/reeq
Provides Some Helper Functions For RNA-Seq Analysis / IO
.Rbuildignore
.gitignore
.lintr
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/coverage.R
R/data_validity.R
R/define_contrasts.R
R/dgeglm_functions.R
R/dgelist_functions.R
R/feature_annotation.R
R/feature_counts.R
R/feature_counts_io.R
R/import_model.R
R/logfile_cutadapt_io.R
R/logfile_helpers.R
R/logfile_hisat2_io.R
R/lrt_contrast_set_io.R
R/sig_test_summary-class.R
R/sig_test_summary-methods.R
R/utilities.R
README.Rmd
README.md
codecov.yml
man/append_feature_annotations.Rd
man/as_sig_test_summary.Rd
man/cbind_feature_counts.Rd
man/compute_fitted_values.Rd
man/cqn_dgelist.Rd
man/define_contrasts.Rd
man/export.Rd
man/export.sig_test_summary.Rd
man/extract_cutadapt_summary.Rd
man/feature_counts_to_dgelist.Rd
man/filter_by_read_count.Rd
man/get_features.Rd
man/get_features.sig_test_summary.Rd
man/get_gc_percent.Rd
man/get_sig_test_summary.Rd
man/helper_check_validity_k_covered.Rd
man/helper_k_covered_docs.Rd
man/import_contrasts.Rd
man/import_cutadapt_summary.Rd
man/import_design.Rd
man/import_hisat2_summary.Rd
man/parse_colon_separated_lines.Rd
man/parse_cutadapt_summary.Rd
man/parse_hisat2_summary.Rd
man/parse_lrt_table.Rd
man/parse_numeric_fields.Rd
man/read_feature_counts.Rd
man/read_single_feature_counts_file.Rd
man/replace_with.Rd
man/set_offset.Rd
man/spread_and_rename_cutadapt_fieldnames.Rd
man/spread_and_rename_hisat2_fieldnames.Rd
man/spread_and_rename_numeric_fields.Rd
man/which_k_covered.Rd
man/which_k_covered_across_samples.Rd
man/which_k_covered_each_sample.Rd
reeq.Rproj
tests/testthat.R
tests/testthat/feature_counts/short_1.tsv
tests/testthat/feature_counts/standard_1.tsv
tests/testthat/helper.R
tests/testthat/logfile_cutadapt/paired_end_cutadapt.log
tests/testthat/logfile_hisat2/paired_end_alignment.bam
tests/testthat/model_tables/contrasts.tsv
tests/testthat/model_tables/design.tsv
tests/testthat/test-coverage.R
tests/testthat/test-data_validity.R
tests/testthat/test-define_contrasts.R
tests/testthat/test-dgeglm_functions.R
tests/testthat/test-dgelist_functions.R
tests/testthat/test-feature_annotation.R
tests/testthat/test-feature_counts.R
tests/testthat/test-feature_counts_io.R
tests/testthat/test-import_model.R
tests/testthat/test-logfile_cutadapt_io.R
tests/testthat/test-logfile_helpers.R
tests/testthat/test-logfile_hisat2_io.R
tests/testthat/test-lrt_contrast_set_io.R
tests/testthat/test-sig_test_summary-class.R
tests/testthat/test-sig_test_summary-methods.R
tests/testthat/test-utilities.R
