Files in axelmuller/geometric2
NURSA annotation aid
DESCRIPTION
NAMESPACE
R/Step1.R
R/Step2_PCA.rmd
R/Step3.R
R/Step4.R
R/Step5.R
R/annotate_limma_output.R
R/fitter.R
R/limma_functions.R
R/makeContrasts.R
R/misc.R
R/qc.R
R/steps_functions.R
R/test_git.R
README.adoc
allbiosamples_am.csv
combined_sample_descriptions.xlsx
data/biosamps.rda
geometric2.pdf
man/datasetsAnnotation.Rd
man/fitting.Rd
man/geneAnnotateGPL.Rd
man/get_DSinfo.Rd
man/get_contrast.matrix.Rd
man/get_design.Rd
man/get_eset.Rd
man/get_eset_from_table.Rd
man/get_fitfiles.Rd
man/get_input.Rd
man/get_input_only.Rd
man/groups.Rd
man/groups_and_contrasts.Rd
man/hello.Rd
man/limma_fit.Rd
man/process_fitoutput.Rd
man/process_fitoutput_with_gpl.Rd
man/qc_plots.Rd
man/step_1.Rd
man/write_fit_file.Rd
required_files/GEOtemp/.gitignore
required_files/allbiosamples.txt
required_files/biosamps.txt
step_by_step_guide.org
vignettes/.GSE6346/GEOtemp/GPL1310.soft
vignettes/.GSE6346/GEOtemp/GSE6346_series_matrix.txt.gz
vignettes/.GSE6346/Results/fit.txt
vignettes/.GSE6346/gselist.txt
vignettes/.GSE6346/sample_review.txt
vignettes/.~lock.contrasts.txt#
vignettes/1C_experiments.Rmd
vignettes/1C_experiments.html
vignettes/1c_walkthrough.adoc
vignettes/2color_arrays_vignette.Rmd
vignettes/2color_arrays_vignette.html
vignettes/2color_common_reference.Rmd
vignettes/2color_common_reference.html
vignettes/GEOtemp/GPL1310.soft
vignettes/GEOtemp/GPL1310.tsv
vignettes/GEOtemp/GPL3364.tsv
vignettes/GEOtemp/GSE6346_series_matrix.txt.gz
vignettes/GSE30849/GEOtemp/GPL3779.soft
vignettes/GSE30849/GEOtemp/GSE30849_series_matrix.txt.gz
vignettes/GSE30849/Results/GSE30849_description.xlsx
vignettes/GSE30849/Results/GSE90849_annotated.txt
vignettes/GSE30849/Results/fit3.txt
vignettes/GSE30849/Rplots.pdf
vignettes/GSE30849/Step2_PCA.rmd
vignettes/GSE30849/alt_workflow.R
vignettes/GSE30849/contrasts.txt
vignettes/GSE30849/dsinfo.tsv
vignettes/GSE30849/gselist.txt
vignettes/GSE30849/sample_review.txt
vignettes/GSE30849/sample_review2.txt
vignettes/GSE30849/sample_review3.txt
vignettes/GSE6346_sample_review_anno.txt
vignettes/GSE81889_Ctrl_vs_ifnA.differential_gene_expression.out.txt
vignettes/GSE81889_Normalized_Ctrl.vs.IFNa.txt
vignettes/RNAseq_data.Rmd
vignettes/RNAseq_data.html
vignettes/RNAseq_efit.txt
vignettes/annotations.Rmd
vignettes/annotations.html
vignettes/contrasts.txt
vignettes/dsinfo.tsv
vignettes/geometric2-vignette.Rmd
vignettes/pdfs/Annotating_limma-fitted_data_from_microarrays.pdf
vignettes/pdfs/Processing_2_color_array_data_from_GEO_with_geometric2.pdf
vignettes/pdfs/Processing_GEO_entries_with_geometric2.pdf
vignettes/pdfs/RNAseq_vignette.pdf
vignettes/rnaseq_geodata_screenshot_edited.png
vignettes/test_data/.GSE6346/GEOtemp/GPL1310.soft
vignettes/test_data/.GSE6346/GEOtemp/GSE6346_series_matrix.txt.gz
vignettes/test_data/.GSE6346/gselist.txt
vignettes/test_data/.GSE6346/sample_review.txt
vignettes/test_data/new_workflow.R
