Files in TmCalculator
Genome-Wide Nucleic Acid Melting Temperature Profiling and Multi-Omics Integration
MD5
NEWS.md
README.md
NAMESPACE
DESCRIPTION
LICENSE
R/RcppExports.R
R/thermodynamic_nn_params.R
R/sysdata.rda
R/TmCalculator-package.R
R/print.TmCalculator.R
R/salt_correction.R
R/plot_tm.R
R/tm_source.R
R/thermodynamic_gc_params.R
R/to_genomic_ranges.R
R/generate_complement.R
R/tm_calculate.R
R/plot_genome_track.R
R/tm_gc.R
R/compare_groups.R
R/ecoli_rep_hotspots.R
R/tm_nn.R
R/tm_wallace.R
R/make_genomiccoord.R
R/coor_to_genomic_ranges.R
R/zzz.R
R/GC.R
R/integrate_granges.R
R/chem_correct.R
R/utils.R
src/RcppExports.cpp
src/gc_core.cpp
src/tm_nn_core.cpp
inst/doc/hg38_performance_parallel.Rmd
inst/doc/genome_wide_tm_ecoli.html
inst/doc/window_size_sensitivity.R
inst/doc/window_size_sensitivity.Rmd
inst/doc/hg38_performance_parallel.R
inst/doc/genome_wide_tm_ecoli.R
inst/doc/hg38_performance_parallel.html
inst/doc/genome_wide_tm_ecoli.Rmd
inst/doc/window_size_sensitivity.html
inst/extdata/nn_params_provenance_v1.1.1.md
inst/extdata/crosstool_consistency.csv
inst/extdata/example1.fasta
inst/extdata/bench_hg38_cluster.csv
inst/extdata/tm_nn_parameter_sources.tsv
inst/extdata/terminal_core_reconstruction.tsv
inst/extdata/crosstool_bench.csv
inst/extdata/example2.fasta
inst/extdata/terminal_initiation_evidence.md
inst/extdata/tm_nn_reference_audit.md
inst/extdata/bench_hg38_laptop.csv
inst/extdata/BSgenome.Hsapiens.UCSC.hg38.fasta
inst/scripts/bench_crosstool.R
inst/scripts/plot_crosstool.R
inst/scripts/make_tm_ASM584v2.R
inst/scripts/bench_tm_calculate.R
inst/scripts/bench_tm_calculate.lsf
inst/scripts/bench_tm_calculate_local.sh
inst/scripts/quick_parallel_mac.R
inst/scripts/find_isoGC_pairs.R
inst/scripts/fix_ecoli_rep_hotspots.R
inst/scripts/test_tm_calculate_merged.R
inst/scripts/make_figure3.R
inst/scripts/make_figure2.R
inst/scripts/setup_cluster_env.sh
inst/scripts/make_figure5.R
inst/scripts/make_figure4.R
inst/vignette-source/hg38_performance_parallel.Rmd
inst/vignette-source/window_size_sensitivity.Rmd
inst/vignette-source/genome_wide_tm_ecoli.Rmd
build/vignette.rds
tests/testthat.R
tests/testthat/test_regressions_1_1_2.R
tests/testthat/test_gc_vec.R
tests/testthat/test_integrate_weight.R
tests/testthat/test_wallace_length.R
tests/testthat/test_nn_rc_completion.R
tests/testthat/test_tm_nn_rcpp.R
tests/testthat/test_user_nn_table.R
tests/testthat/test_tm_calculate.R
vignettes/hg38_performance_parallel.Rmd
vignettes/window_size_sensitivity.Rmd
vignettes/genome_wide_tm_ecoli.Rmd
data/thermodynamic_gc_params.RData
data/thermodynamic_nn_params.RData
data/ecoli_rep_hotspots.rda
man/dot-salt_correct_vec.Rd
man/dot-tm_task_fasta.Rd
man/coor_to_genomic_ranges.Rd
man/chem_correct.Rd
man/dot-tm_match.Rd
man/dot-find_N_bounds.Rd
man/dot-tm_task_bsgenome.Rd
man/dot-tm_source.Rd
man/print.TmCalculator.Rd
man/dot-tm_offsets.Rd
man/dot-get_bsgenome_from_pkg.Rd
man/dot-fasta_lengths.Rd
man/ecoli_rep_hotspots.Rd
man/tm_nn.Rd
man/dot-tm_as_granges.Rd
man/thermodynamic_nn_params.Rd
man/dot-load_genome_packages.Rd
man/s2c.Rd
man/plot_tm.Rd
man/vec_to_genomic_ranges.Rd
man/thermodynamic_gc_params.Rd
man/complement_fast.Rd
man/check_filter_seq.Rd
man/gc_content.Rd
man/dot-parse_coord_strings.Rd
man/dot-getseq_preload_chr.Rd
man/generate_complement.Rd
man/dot-getseq_vectorized.Rd
man/dot-tm_complete_gr.Rd
man/integrate_granges.Rd
man/dot-spill_fasta.Rd
man/fa_to_genomic_ranges.Rd
man/dot-tm_tasks.Rd
man/dot-chem_correct_vec.Rd
man/tm_calculate.Rd
man/dot-tm_run.Rd
man/dot-normalize_tm_gc_metadata.Rd
man/tm_gc.Rd
man/cash-.TmCalculator.Rd
man/compare_groups.Rd
man/dot-filter_N_windows.Rd
man/dot-gc_vec.Rd
man/salt_correct.Rd
man/dot-tm_model.Rd
man/TmCalculator-package.Rd
man/to_genomic_ranges.Rd
man/make_genomiccoord.Rd
man/dot-tm_finish.Rd
man/dot-tm_regions.Rd
man/tm_wallace.Rd
man/plot_genome_track.Rd
man/figures/logo.png
