Complete File Upload Test

📋 Input Format Requirements

🧬 Geneset Upload Format

Gene set files should contain one gene identifier per line. Identifiers must be in Ensembl ID format only.

Here's an example of a correctly formatted geneset upload file:

ENSMUSG00000026842

ENSMUSG00000026003

ENSMUSG00000029545

ENSMUSG00000023328

ENSMUSG00000028405

ENSMUSG00000026836

📊 GWAS File Format

Your GWAS file must include these 8 columns (in exact order):

Column	Description	Example
SNP_ID	Variant identifier (rs number)	rs11130222
CHR	Chromosome number (1-22)	3
POS	Genomic position	49901060
A1	Effect allele	A
A2	Other allele	T
Beta	Effect size	0.026
SE	Standard error	0.003
Pval	P-value	4.581e-25

📝 File Preparation Tips

• ✓ GWAS file format: Must be compressed as .gz file
• ✓ Header: First line must contain exactly these column names
• ⚠ Missing positions: If your file lacks chromosome/position, use Map_RSID tool
• ⚠ Z-scores: Convert Z-scores to Beta/SE using this guide
• ✓ Gene set files: Plain text (.txt) with one gene ID per line

🗜️ How to Compress Your GWAS File

Using R:

# Save your data as a .gz file
library(R.utils)
write.table(your_data, "yourfile.txt", sep="\t", row.names=FALSE, col.names=TRUE, quote=FALSE)
gzip("yourfile.txt", destname="yourfile.gz", overwrite=TRUE)
            

Using Windows:

Right-click file → 7-Zip → Add to archive → Select .gz format