Files in pcahan1/CellNet
Assess and improve cell fate engineering with network biology
CellNet.Rproj
DESCRIPTION
LICENCE
NAMESPACE
R/.Rapp.history
R/CellNet.R
R/cn_assess.R
R/cn_graphics.R
R/cn_grn.R
R/cn_preprocess.R
R/cn_sc.R
R/cn_utils.R
R/data.R
README.md
data/hsTFs.rda
data/mmTFs.rda
man/.Rapp.history
man/GEP_makeMean.Rd
man/Norm_cleanExp.Rd
man/Norm_cleanPropRaw.Rd
man/Norm_loadAnnotation.Rd
man/Norm_preNormRaw.Rd
man/Norm_quantNorm.Rd
man/cleanup.Rd
man/cn_HmClass.Rd
man/cn_HmClass_disease.Rd
man/cn_HmVars.Rd
man/cn_MakeTLs.Rd
man/cn_addAUPRs.Rd
man/cn_apply.Rd
man/cn_assessGRN.Rd
man/cn_barplot_grnSing.Rd
man/cn_barplot_grnSing_base.Rd
man/cn_calcPRs.Rd
man/cn_clPerf.Rd
man/cn_classAssess.Rd
man/cn_class_perf_hm_ordered.Rd
man/cn_classify.Rd
man/cn_clr.Rd
man/cn_compileGRNassessments.Rd
man/cn_computeAUCPR.Rd
man/cn_convertPR.Rd
man/cn_correctZmat.Rd
man/cn_eval.Rd
man/cn_extractRegsDF.Rd
man/cn_extractSubNets.Rd
man/cn_extract_SN_DF.Rd
man/cn_findSensAt.Rd
man/cn_findSpecGenes.Rd
man/cn_getRawGRN.Rd
man/cn_get_targets.Rd
man/cn_get_targets_of.Rd
man/cn_makeClassifier.Rd
man/cn_makeRFs.Rd
man/cn_makeSGs.Rd
man/cn_makeTFtable.Rd
man/cn_make_grn.Rd
man/cn_make_processor.Rd
man/cn_make_tVals.Rd
man/cn_make_tVals_predict.Rd
man/cn_netScores.Rd
man/cn_nis.Rd
man/cn_nis_all.Rd
man/cn_normalizeScores.Rd
man/cn_outputRes.Rd
man/cn_rawScore.Rd
man/cn_rectArea.Rd
man/cn_remake_processor.Rd
man/cn_s3_fetchFastq.Rd
man/cn_salmon.Rd
man/cn_sampR_to_pattern.Rd
man/cn_score.Rd
man/cn_setup.Rd
man/cn_specGRNs.Rd
man/cn_specGenesAll.Rd
man/cn_splitMakeAssess.Rd
man/cn_summ_AUPRs.Rd
man/cn_testPattern.Rd
man/cn_tfScore.Rd
man/cn_trainNorm.Rd
man/cn_writeReadme.Rd
man/delete_par.Rd
man/downSampleW.Rd
man/expr_readSampTab.Rd
man/expr_reorder.Rd
man/fastq_readLength.Rd
man/fastq_trim.Rd
man/feature_count_par.Rd
man/fetchAndConvert.Rd
man/fetchIndexHandler.Rd
man/fetch_salmon_indices.Rd
man/find_tfs.Rd
man/gene_expr_sum.Rd
man/geo_fixNames.Rd
man/get_grn_scores.Rd
man/grn_corr_round.Rd
man/grn_zscores.Rd
man/hisat_QC_align.Rd
man/hisat_QC_aligns.Rd
man/hisat_findIndices.Rd
man/hsTFs.Rd
man/htseqCount.Rd
man/ig_tabToIgraph.Rd
man/mat_zscores.Rd
man/minDif.Rd
man/mmTFs.Rd
man/mp_rainbowPlot.Rd
man/multiplot.Rd
man/ordered_class_perf_hm.Rd
man/pdf_classification_hm.Rd
man/pdf_grn_status.Rd
man/pdf_grn_status_by_CT.Rd
man/pdf_grn_status_by_dlevel.Rd
man/pdf_nis_plots.Rd
man/plot_class_PRs.Rd
man/plot_nis.Rd
man/pool_auPRs.Rd
man/processSRA.Rd
man/qcAndSalmon.Rd
man/qc_analysis.Rd
man/randomize.Rd
man/s3_get.Rd
man/s3_listDir.Rd
man/s3_put.Rd
man/salmon_load_tranEst.Rd
man/salmon_par.Rd
man/samp_for_class.Rd
man/sample_profiles_grn.Rd
man/sra_breakTable.Rd
man/sra_delete.Rd
man/sra_fetch.Rd
man/sra_parse.Rd
man/subSamp_for_class.Rd
man/subsamp_fastqs.Rd
man/trans_dNorm.Rd
man/trans_eShift.Rd
man/trans_fetch_index.Rd
man/trans_rnaseq.Rd
man/utils_count_comments.Rd
man/utils_loadObject.Rd
man/utils_log.Rd
man/utils_myDate.Rd
man/utils_myDist.Rd
man/utils_strip_fname.Rd
man/utils_stripwhite.Rd
man/utils_tarcompress_dir.Rd
man/utils_unpack.Rd
man/weighted_down.Rd
md_img/app.png
md_img/bcell_class.png
md_img/grnStat.png
md_img/grn_bcell_Zheng.png
md_img/hm.png
md_img/hm_zheng.png
md_img/hspc_class.png
md_img/mac_class.png
md_img/nis.png
md_img/tcell_class.png
md_img/tsne_Zheng_prefix.png
newHm.R
