Files in kkrismer/transite
RNA-binding protein motif analysis
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/AllClasses.R
R/RcppExports.R
R/combine-p-values.R
R/data.R
R/k-mer-based.R
R/main.R
R/matrix-based.R
R/methods-RBPMotif.R
R/methods-SpectrumScore.R
R/misc.R
R/spectrum.R
R/transite-package.R
R/zzz.R
README.md
data/ge.rda
data/kmers_enrichment.rda
data/motifs.rda
data/toy_motif_matrix.rda
inst/CITATION
man/RBPMotif-class.Rd
man/SpectrumScore-class.Rd
man/calculate_kmer_enrichment.Rd
man/calculate_local_consistency.Rd
man/calculate_motif_enrichment.Rd
man/calculate_transcript_mc.Rd
man/check_kmers.Rd
man/classify_spectrum.Rd
man/compute_kmer_enrichment.Rd
man/count_homopolymer_corrected_kmers.Rd
man/create_kmer_motif.Rd
man/create_matrix_motif.Rd
man/draw_volcano_plot.Rd
man/estimate_significance.Rd
man/estimate_significance_core.Rd
man/ge.Rd
man/generate_iupac_by_kmers.Rd
man/generate_iupac_by_matrix.Rd
man/generate_kmers.Rd
man/generate_kmers_from_iupac.Rd
man/generate_permuted_enrichments.Rd
man/geometric_mean.Rd
man/get_motif_by_id.Rd
man/get_motif_by_rbp.Rd
man/get_motifs.Rd
man/get_motifs_meta_info.Rd
man/get_ppm.Rd
man/init_iupac_lookup_table.Rd
man/kmers_enrichment.Rd
man/motifs.Rd
man/p_combine.Rd
man/run_kmer_spma.Rd
man/run_kmer_tsma.Rd
man/run_matrix_spma.Rd
man/run_matrix_tsma.Rd
man/score_sequences.Rd
man/score_spectrum.Rd
man/score_transcripts.Rd
man/score_transcripts_single_motif.Rd
man/set_motifs.Rd
man/subdivide_data.Rd
man/toy_motif_matrix.Rd
man/transite.Rd
src/RcppExports.cpp
src/scoring.cpp
tests/testthat.R
tests/testthat/test-combine-p-values.R
tests/testthat/test-k-mer-based.R
tests/testthat/test-main.R
tests/testthat/test-matrix-based.R
tests/testthat/test-misc.R
tests/testthat/test-spectrum.R
vignettes/spma.Rmd
