def test_nfr(self):
cmd = "nucleoatac nfr --bed example/example.bed --occ_track example/example_results/example.occ.bedgraph.gz --calls example/example_results/example.nucmap_combined.bed.gz --out example/test_results/test --bam example/example.bam --fasta example/sacCer3.fa"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_nuc(self):
cmd = "nucleoatac nuc --bam example/example.bam --bed example/example.bed --fasta example/sacCer3.fa --out example/test_results/test --vmat example/example_results/example.VMat --cores 2"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_merge(self):
cmd = "nucleoatac merge --occpeaks example/example_results/example.occpeaks.bed.gz --nucpos example/example_results/example.nucpos.bed.gz --out example/test_results/test"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_vprocess(self):
cmd = "nucleoatac vprocess --out example/test_results/test --sizes example/example_results/example.nuc_dist.txt"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_nfr(self):
cmd = "nucleoatac nfr --bed example/example.bed --occ_track example/example_results/example.occ.bedgraph.gz --calls example/example_results/example.nucmap_combined.bed.gz --out example/test_results/test --bam example/example.bam --fasta example/sacCer3.fa"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_merge(self):
cmd = "nucleoatac merge --occpeaks example/example_results/example.occpeaks.bed.gz --nucpos example/example_results/example.nucpos.bed.gz --out example/test_results/test"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_nuc(self):
cmd = "nucleoatac nuc --bam example/example.bam --bed example/example.bed --fasta example/sacCer3.fa --out example/test_results/test --vmat example/example_results/example.VMat --cores 2"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)
def test_vprocess(self):
cmd = "nucleoatac vprocess --out example/test_results/test --sizes example/example_results/example.nuc_dist.txt"
args = self.parser.parse_args(cmd.split()[1:])
nucleoatac_main(args)