Files in pachterlab/sleuth
Tools for investigating RNA-Seq

.gitignore
.lintr
CHANGELOG.md CONTRIBUTING.md
DESCRIPTION
LICENSE
NAMESPACE
R/bootstrap.R R/gene_analysis.R R/hexamers.R R/import.R R/kallisto.R R/likelihood.R R/matrix.R R/measurement_error.R R/misc.R R/model.R R/plots.R R/read_write.R R/shiny.R R/sleuth.R R/units.R README.md
inst/doc/intro.html
inst/scripts/gen_hexamers.sh
inst/scripts/hexamers.py
man/basic_filter.Rd man/cash-set-.sleuth.Rd man/design_matrix.Rd man/excluded_ids.Rd man/extract_model.Rd man/gene_from_gene.Rd man/get_bootstrap_summary.Rd man/get_bootstraps.Rd man/get_col.Rd man/is_kallisto_subset.Rd man/kallisto_table.Rd man/log_transform.Rd man/models.Rd man/norm_factors.Rd man/plot_bootstrap.Rd man/plot_fld.kallisto.Rd man/plot_fld.sleuth.Rd man/plot_group_density.Rd man/plot_loadings.Rd man/plot_ma.Rd man/plot_mean_var.Rd man/plot_pc_variance.Rd man/plot_pca.Rd man/plot_qq.Rd man/plot_sample_density.Rd man/plot_sample_heatmap.Rd man/plot_scatter.Rd man/plot_transcript_heatmap.Rd man/plot_vars.Rd man/plot_volcano.Rd man/print.sleuth_model.Rd man/read_kallisto.Rd man/read_kallisto_h5.Rd man/read_kallisto_tsv.Rd man/sleuth_deploy.Rd man/sleuth_fit.Rd man/sleuth_gene_table.Rd man/sleuth_live.Rd man/sleuth_live_settings.Rd man/sleuth_load.Rd man/sleuth_lrt.Rd man/sleuth_prep.Rd man/sleuth_results.Rd man/sleuth_save.Rd man/sleuth_to_matrix.Rd man/sleuth_wt.Rd man/subset_kallisto.Rd man/transcripts_from_gene.Rd man/transform_fun_counts-set.Rd man/transform_fun_tpm-set.Rd man/transform_status.Rd man/write_kallisto_hdf5.Rd tests/testthat.R tests/testthat/ellahi/README.md
tests/testthat/ellahi/SRR1811834/kallisto/abundance.h5
tests/testthat/ellahi/SRR1812754/kallisto/abundance.h5
tests/testthat/ellahi/SRR1812759/kallisto/abundance.h5
tests/testthat/ellahi/SRR1812760/kallisto/abundance.h5
tests/testthat/ellahi/SRR1812767/kallisto/abundance.h5
tests/testthat/ellahi/SRR1812768/kallisto/abundance.h5
tests/testthat/ellahi/ellahi_gene.rda
tests/testthat/ellahi/ellahi_transcript.rda
tests/testthat/ellahi/study_design.txt
tests/testthat/ellahi/target_mappings.txt
tests/testthat/ellahi/target_mappings_incomplete.txt
tests/testthat/helper-setup.R
tests/testthat/small_test_data/kallisto.N/abundance.h5
tests/testthat/small_test_data/kallisto/abundance.h5
tests/testthat/small_test_data/kallisto/abundance.tsv
tests/testthat/small_test_data/kallisto/run_info.json
tests/testthat/small_test_data/target_mapping.txt
tests/testthat/test-analysis.R tests/testthat/test-lintr.R tests/testthat/test-prep.R tests/testthat/test-read.R
vignettes/figure/unnamed-chunk-1-1.png
vignettes/figure/unnamed-chunk-1-2.png
vignettes/intro.Rmd
pachterlab/sleuth documentation built on June 30, 2018, 1:14 p.m.