Novoindex error with gene masked genome
Hi there,
When I try to build transcriptome index using gene masked genome, I got error message:
Error: Invalid NA code in ~/MaskedFastas/geneMaskedGenome.fasta at line 1.
I built gene masked genome using Useq MaskExonsInFastaFiles as:
java -Xmx8G -jar /usr/local/useq/Apps/MaskExonsInFastaFiles -f ~/Homo_sapiens/UCSC/hg19/Sequence/Chromosomes -u ~/refFlat_clean.txt -s ~/MaskedFastas
Any idea how to fix it?
Thank you,
Shile


