Prepare genome index files for VIPER (hg38 version) - Githubissues

xie186 / miscellaneous_note

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Prepare genome index files for VIPER (hg38 version) #17

Open xie186 opened 4 years ago

xie186 commented 4 years ago

Build genome index

 wget https://www.dropbox.com/sh/8cqooj05i7rnyou/AACSA3R4URk4kqAWOTlvj8z6a/hg38.tar.gz

STAR --runMode genomeGenerate --runThreadN 19 --genomeDir STAR/ --genomeFastaFiles assembly/hg38.fa --sjdbGTFfile hg38.refseq.gtf

wget ftp://ftp.ensembl.org/pub/release-90/fasta/homo_sapiens/ncrna/Homo_sapiens.GRCh38.ncrna.fa.gz

 gunzip Homo_sapiens.GRCh38.ncrna.fa.gz
 STAR   --runMode genomeGenerate   --runThreadN 60   --genomeDir STAR_ncrna/   --genomeFastaFiles Homo_sapiens.GRCh38.ncrna.fa --limitGenomeGenerateRAM 45000000000