update the reference T2TCHM13 of scatac-genescore - #165
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March 6, 2023 22:13
add file annotations/T2TCHM13_refgenes.txt add argument T2TCHM13 for scatac-genescore in file scATAC_Genescore.py
add file annotations/T2TCHM13_refgenes.txt add argument T2TCHM13 for scatac-genescore in file scATAC_Genescore.py
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add file 'annotations/T2TCHM13_refgenes.txt'
add argument 'T2TCHM13' for scatac-genescore in file 'scATAC_Genescore.py'
Since I used the T2TCHM13 reference genome for the scATAC-seq comparison, after comparing the difference between GRCh38 and T2TCHM13, I found that there is a difference in the chromosomal location of the same gene, and if I use GRCh38 to calculate gene activity I may not end up with the expected result, so I extracted the T2TCHM13.gtf file The file 'T2TCHM13_refgenes.txt' was written in the format of 'GRCh38_refgenes.txt', which is now shared with the modified commands.