Files in orionzhou/rmaize

Common bioinformatic utilities

R/BSgenomeForge.R R/color.pal.R R/common.R R/enrich.R R/font.R R/gdrive.R R/gene.R R/genome.R R/location.R R/ml.R R/motif.R R/plot.R R/rnaseq.R R/sra.R README.md archive/Align.R archive/LDhat.R archive/acr.1.blat.md archive/acr.2.R archive/acr.5.qc.R archive/acr.9.R archive/alpaca.genefam.R archive/alpaca.plot.R archive/alpaca.stat.R archive/apple.genepos.R archive/bd.crp.R archive/centromere.mt40.R archive/clustertree.R archive/comp.cnv.R archive/comp.dotplot.R archive/comp.expand.R archive/comp.fun.R archive/comp.genefam.R archive/comp.genefam.mpd.R archive/comp.genefam.vnt.R archive/comp.novseq.R archive/comp.og.R archive/comp.ortho.R archive/comp.ortho.case.R archive/comp.ortho.hclust.R archive/comp.ortho.hm.R archive/comp.ortho.ins.R archive/comp.ortho.score.R archive/comp.panseq.R archive/comp.plot.R archive/comp.plot.fun.R archive/comp.plot.gene.R archive/comp.stat.R archive/comp.stat.gene.R archive/comp.stat.pan.gen.R archive/comp.stat.pan.prot.R archive/comp.stat.pan.prot.old.R archive/comp.stat.pb.R archive/comp.sv.R archive/comp.sv.valid.R archive/comp.syn.R archive/comp.vnt.R archive/comp.vnt.cmp.R archive/comp.vnt.indel.R archive/comp.win.R archive/comp.win.fun.R archive/comp.win.s.R archive/cov_ratio.R archive/crp.R archive/crp_plot.R archive/gene.cluster.R archive/gene.cluster2.R archive/genefam.R archive/gff.R archive/gge.R archive/grn.1.rpkm.R archive/grn.2.qc.R archive/grn.27.coexp.1.R archive/grn.27.coexp.2.R archive/grn.27.coexp.3.R archive/grn.3.R archive/grn.3.hpc.R archive/grn.4.camoco.R archive/grn.4.hpc.R archive/grn.5.aracne.R archive/grn.6.genie3.R archive/grn.6.hpc.R archive/grn.sarah.R archive/gtb.R archive/gviz.R archive/gviz.fun.R archive/hc.R archive/linhao.R archive/loccluster.R archive/loccluster_demo.R archive/mo17.trnity.R archive/mt.anno.R archive/pan4probe.R archive/pbjoin.R archive/pedtools.R archive/phy.R archive/phy.bact.R archive/phy.gene.R archive/snpStats.R archive/spada.plot.R archive/ssp.R archive/sv.R archive/synblock.R archive/test.R archive/tf.promoter.R archive/urt.1.clean.R archive/urt.2.reshape.R archive/urt.3.trialmeta.R archive/urt.4.strain.R archive/urt.R man/Mode.Rd man/cmp_proportion.Rd man/cmp_proportion1.Rd man/complete_sample_list.Rd man/desc_stat.Rd man/fit_split.Rd man/flattern_gcoord.Rd man/flattern_gcoord_prepare.Rd man/generate_sample_id.Rd man/genome_dir.Rd man/get_density.Rd man/get_grid.Rd man/get_model.Rd man/get_sra_meta.Rd man/get_tuner.Rd man/go_enrich.Rd man/hc_order_row.Rd man/heatmap_hc.Rd man/hyper_enrich.Rd man/hyper_enrich_m.Rd man/idist.Rd man/intersect_basepair.Rd man/intersect_cds_sv.Rd man/intersect_count.Rd man/intersect_gene.Rd man/intersect_idx.Rd man/intersect_idx_maxovlp.Rd man/intersect_idx_t.Rd man/intersect_once.Rd man/intersect_s.Rd man/intersect_score.Rd man/lg.Rd man/liftover.Rd man/load_fonts.Rd man/load_txdb.Rd man/lsos.Rd man/make_tile.Rd man/merge_reps.Rd man/metric_balanced.Rd man/metrics6.Rd man/ml0.Rd man/ml1.Rd man/otheme.Rd man/pal_10.Rd man/pal_12.Rd man/pal_13.Rd man/pal_23.Rd man/pal_23b.Rd man/pal_gradient.Rd man/pal_shapes.Rd man/plot_ase.Rd man/plot_hclust.Rd man/plot_hist.Rd man/plot_pca.Rd man/plot_ril_genotype.Rd man/plot_tsne.Rd man/plot_umap.Rd man/read_genome_conf.Rd man/read_go.Rd man/read_gspread.Rd man/read_gspread_master.Rd man/read_regions.Rd man/read_sra_run.Rd man/read_symbol.Rd man/read_syn.Rd man/read_tf.Rd man/readcount_norm.Rd man/rnaseq_cpm.Rd man/rnaseq_cpm_raw.Rd man/rnaseq_mapping_stat.Rd man/rnaseq_sample_meta.Rd man/set_bound.Rd man/sortC.Rd man/sra_fill_replicate.Rd man/sum_stat_tibble.Rd man/test_enrich.Rd man/v3_to_v4.Rd src/document.R src/install.R src/render.R