File size: 728 Bytes
1927f8f 29899b4 a887ffc 1927f8f f936712 a887ffc 1927f8f a887ffc 1927f8f a887ffc 1927f8f a887ffc 1927f8f a887ffc 1927f8f | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 | name: run_fimo
task_type: fimo
debug: true
paths:
input_csv: dpacman/data_files/processed/fimo/remap2022_crm_fimo_input.csv
json_dir: dpacman/data_files/raw/genomes/hg38
input_fasta_outer_dir: dpacman/data_files/processed/fimo/chrom_inputs
fimo_outdir: dpacman/data_files/processed/fimo/fimo_out
seq_fasta: to_scan.fa
bg_model: bg_model.txt
meme:
fimo_bin: /vast/projects/pranam/lab/shared/meme/bin/fimo
fasta_get_markov: /vast/projects/pranam/lab/shared/meme/libexec/meme-5.5.8/fasta-get-markov
jaspar_motif_file: /vast/projects/pranam/lab/shared/meme-5.5.8/tests/common/JASPAR_CORE_2014_vertebrates.meme
fimo:
thresh: 1e-2
thresh_mode: q
max_stored: 1000000
njobs: 64
chroms: [1]
all_caps: true
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