diff --git a/R/coding.R b/R/coding.R index 443fb8a..52ee41a 100644 --- a/R/coding.R +++ b/R/coding.R @@ -627,7 +627,7 @@ coding <- function(chr,gene_name,genofile,obj_nullmodel,genes, results_m[length(results_m)] <- 1 } - apc_num <- (length(results_m)-10)/6 + apc_num <- (length(results_m)-10)/2 p_seq <- c(1:apc_num,1:apc_num+(apc_num+1),(length(results_m)-6):(length(results_m)-5)) ## calculate STAAR-B diff --git a/R/coding_incl_ptv.R b/R/coding_incl_ptv.R index d7ff50c..c03cbc5 100644 --- a/R/coding_incl_ptv.R +++ b/R/coding_incl_ptv.R @@ -844,7 +844,7 @@ coding_incl_ptv <- function(chr,gene_name,genofile,obj_nullmodel,genes, results_m[length(results_m)] <- 1 } - apc_num <- (length(results_m)-10)/6 + apc_num <- (length(results_m)-10)/2 p_seq <- c(1:apc_num,1:apc_num+(apc_num+1),(length(results_m)-6):(length(results_m)-5)) ## calculate STAAR-B diff --git a/R/missense.R b/R/missense.R index 6596f0b..5018438 100644 --- a/R/missense.R +++ b/R/missense.R @@ -356,7 +356,7 @@ missense <- function(chr,gene_name,genofile,obj_nullmodel,genes, results_m[length(results_m)] <- 1 } - apc_num <- (length(results_m)-10)/6 + apc_num <- (length(results_m)-10)/2 p_seq <- c(1:apc_num,1:apc_num+(apc_num+1),(length(results_m)-6):(length(results_m)-5)) ## calculate STAAR-B diff --git a/R/missense_cond_spa.R b/R/missense_cond_spa.R index 965db16..89cbc8f 100644 --- a/R/missense_cond_spa.R +++ b/R/missense_cond_spa.R @@ -328,7 +328,7 @@ missense_cond_spa <- function(chr,gene_name,genofile,obj_nullmodel,genes,known_l results_m[length(results_m)] <- 1 } - apc_num <- (length(results_m)-10)/6 + apc_num <- (length(results_m)-10)/2 p_seq <- c(1:apc_num,1:apc_num+(apc_num+1),(length(results_m)-6):(length(results_m)-5)) ## calculate STAAR-B