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ENCODE-DCC / long-rna-seq-pipeline

STAR based ENCODE Long RNA-Seq processing pipeline
MIT License
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The originality of gene id #7

Open hgu0717 opened 5 years ago

hgu0717 commented 5 years ago

Hi,

I am new to the RNAseq field and trying to find some useful information from gene quantification (tsv file) from ENCODE pipeline. Is there anyway I can convert gene_id into chromosome location? Could you give me more information about gene id? I can found some gene id in ensembl, but not all of them.

Thanks,

sdjebali commented 5 years ago

Hi, the RNA-seq pipeline takes as input the gtf file corresponding to the gencode gene annotation. In this gtf file the gene rows will give you the correspondance between gene_id and gene coordinates. Best, Sarah