## ----eval=FALSE------------------------------------------------------------ # List of 2 # $ HTZ1_Differential_genes_TOP100_v2.gff:List of 2 # ..$ HTZ1_JA00001_IL1andIL2_F_N2_L3_NORM_linear_1bp_IL010andIL009_averaged.bw :List of 7 # .. ..$ means : num [1:501] 2.52 2.52 2.52 2.53 2.54 ... # .. ..$ stderror: num [1:501] 0.114 0.112 0.111 0.11 0.109 ... # .. ..$ conint : num [1:501] 0.226 0.223 0.221 0.218 0.217 ... # .. ..$ all_ind : num [1:501] -1000 -995 -990 -985 -980 -975 -970 -965 -960 -955 ... # .. ..$ e : NULL # .. ..$ desc : chr "HTZ1_JA00001_IL1andIL2...\n@HTZ1_Differential_genes_TOP100_v2" # .. ..$ heatmap : num [1:100, 1:501] 2.36 5.25 2.2 3.48 4.32 ... # ..$ HTZ1_JA00001_IL3andIIL5_F_lin35_L3_NORM_linear_1bp_IL008andIL011_averaged.bw:List of 7 # .. ..$ means : num [1:501] 2.36 2.35 2.35 2.36 2.38 ... # .. ..$ stderror: num [1:501] 0.126 0.125 0.125 0.126 0.125 ... # .. ..$ conint : num [1:501] 0.249 0.249 0.247 0.251 0.249 ... # .. ..$ all_ind : num [1:501] -1000 -995 -990 -985 -980 -975 -970 -965 -960 -955 ... # .. ..$ e : NULL # .. ..$ desc : chr "HTZ1_JA00001_IL3andIIL5...\n@HTZ1_Differential_genes_TOP100_v2" # .. ..$ heatmap : num [1:100, 1:501] 2.61 3.17 1.42 2.46 4.26 ... # $ HTZ1_Differential_genes_BOTTOM100.gff:List of 2 # ..$ HTZ1_JA00001_IL1andIL2_F_N2_L3_NORM_linear_1bp_IL010andIL009_averaged.bw :List of 7 # .. ..$ means : num [1:501] 1.57 1.57 1.58 1.6 1.62 ... # .. ..$ stderror: num [1:501] 0.0996 0.0985 0.1003 0.1022 0.1018 ... # .. ..$ conint : num [1:501] 0.198 0.195 0.199 0.203 0.202 ... # .. ..$ all_ind : num [1:501] -1000 -995 -990 -985 -980 -975 -970 -965 -960 -955 ... # .. ..$ e : NULL # .. ..$ desc : chr "HTZ1_JA00001_IL1andIL2...n@HTZ1_Differential_genes_BOTTOM100" # .. ..$ heatmap : num [1:100, 1:501] 1.64 1.37 1.61 1.77 1.86 ... # ..$ HTZ1_JA00001_IL3andIIL5_F_lin35_L3_NORM_linear_1bp_IL008andIL011_averaged.bw:List of 7 # .. ..$ means : num [1:501] 1.94 1.94 1.95 1.96 1.97 ... # .. ..$ stderror: num [1:501] 0.123 0.123 0.124 0.126 0.128 ... # .. ..$ conint : num [1:501] 0.244 0.245 0.246 0.251 0.253 ... # .. ..$ all_ind : num [1:501] -1000 -995 -990 -985 -980 -975 -970 -965 -960 -955 ... # .. ..$ e : NULL # .. ..$ desc : chr "HTZ1_JA00001_IL3andIIL5...\n@HTZ1_Differential_genes_BOTTOM100" # .. ..$ heatmap : num [1:100, 1:501] 1.61 1.37 1.29 3.04 3.77 ... # ## ----echo=FALSE, results='asis', echo=FALSE-------------------------------- files <- c( 'Files.md', 'PlotSets.md', 'Plotting.md', 'Heatmaps.md', 'Outputs.md', 'Batch.md', 'SaveAndLoad.md', 'AdvOup.md', 'Genomes.md', 'Errors.md', 'Terms.md', 'References.md' ) err <- try({ npos <- which(rev(strsplit(getwd(), '/')[[1]]) == "seqplots")-1 if(!length(npos)) npos <- 1 ppath <- paste(rep('../', npos), collapse = '') }) if(class(err) =='try-error') ppath <- '../' cat(knitr::knit_child( text = gsub( "img/", paste0(ppath, "inst/seqplots/www/help/img/"), unlist(lapply(file.path(paste0(ppath, 'inst/seqplots/www/help'), files), readLines)) ), quiet = TRUE ), sep = '\n') ## ----echo=FALSE------------------------------------------------------------ sessionInfo()