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rnakato / DROMPAplus

ChIP-seq pipeline tool for quality check, normalization, statistical analysis, and visualization of multiple ChIP-seq samples.
GNU General Public License v2.0
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Gene Dense text file for ensemble gtf file #11

Closed luckysardar closed 1 year ago

luckysardar commented 1 year ago

Hello,

Thanks for wonderfull tool for chip data I am trying to create gene density text file for GTF file from the ensembl could you please help me to get the output when I am trying getting zero in all the genomic regions and mm10(GRCm38.102) mouse genome gene density data I needed

Thank you

rnakato commented 1 year ago

Hi luckysardar, The makegenedensity.pl script in DROMPAplus takes the refFlat-format gene annotation file as input. So please download it from the UCSC genome browser or convert your .gtf file to the refFlat format.

luckysardar commented 1 year ago

Hello rnakato,

Thank you for the response I will try and get back to you