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fix batch null rs in twas pipeline #425

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Merged
gaow merged 1 commit into from
Nov 25, 2025
Merged

fix batch null rs in twas pipeline #425

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1 change: 1 addition & 0 deletions R/file_utils.R
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Original file line number Diff line number Diff line change
Expand Up @@ -1163,6 +1163,7 @@ batch_load_twas_weights <- function(twas_weights_results, meta_data_df, max_memo
)

# Merge with meta_data_df to get TSS information
meta_data_df <- meta_data_df[!duplicated(meta_data_df[, c("region_id", "TSS")]), ]
gene_memory_df <- merge(gene_memory_df, meta_data_df[, c("region_id", "TSS")],
by.x = "gene_name",
by.y = "region_id", all.x = TRUE
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4 changes: 2 additions & 2 deletions R/twas.R
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Expand Up @@ -576,7 +576,7 @@ twas_pipeline <- function(twas_weights_data,
}
}
if (length(twas_weights_data)==0) {
return(NULL)
return(list(NULL))
}

# harmonize twas weights and gwas sumstats against LD
Expand Down Expand Up @@ -686,7 +686,7 @@ twas_pipeline <- function(twas_weights_data,
gc()
twas_results_db <- twas_results_db[!sapply(twas_results_db, function(x) is.null(x) || (is.list(x) && all(sapply(x, is.null))))]
if (length(twas_results_db) == 0) {
return(NULL)
return(list(NULL))
}
twas_results_table <- do.call(rbind, lapply(twas_results_db, function(x) x$twas_table))
mr_results <- do.call(rbind, lapply(twas_results_db, function(x) x$mr_result))
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