I am trying to annotate a .bed file using homer annotatePeaks.pl
module load homer/ annotatePeaks.pl ConsensusPeaks.bed hg38 -gtf gencode.v43.annotation.gtf.gz > ConsensusPeaks.annotatedPeaks
I obtain the following error message
!!!!Genome /shared/ifbstor1/software/miniconda/envs/homer-4.11/share/homer/hg38 not found in /shared/ifbstor1/software/miniconda/envs/homer-4.11/share/homer/.//config.txt To check if is available, run "perl /shared/ifbstor1/software/miniconda/envs/homer-4.11/share/homer/.//configureHomer.pl -list" If so, add it by typing "perl /shared/ifbstor1/software/miniconda/envs/homer-4.11/share/homer/.//configureHomer.pl -install /shared/ifbstor1/software/miniconda/envs/homer-4.11/share/homer/hg38"
I have tried to add the genome using the suggested commands.
In fact, the genome is already available. Also, I get the same result whichever genome I try to use.
Does anyone have a clue?
Many thanks in advance