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I tried to scan motif on a genome region with hg38 build with `-t 18` corresponded to my CPU number
but it raised:
```python
OSError: [Errno 12] Cannot allocate memory
```
And then I tried …
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pilon -Xmx1000G --genome BTH.fasta --frags aln_chi.bam --output pilon1 --fix all --mindepth 0.5 --changes --verbose --threads 20
The following is my job, which when I submit, gets to the Scanning B…
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Sorry if I missed something, but is there a command line tool for updating an existing annotation with promoter sequences? Say I have a Genbank annotation through NCBI's annotation pipeline and I wan…
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Hello,
I've got the following problems. Could you comment on that?
Thanks,
Segun
cmd: msisensor2 msi -M models_hg19 -t our_tumor.bam -o test
loading homopolymer and microsatellite sites…
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Hi, I'm running Pilon on a genome with size of ~200MB, using 50X short read (around 140GB) for polishing.
I tried pilon multiple time with different genomes of similar size, using the same short read…
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### Feature description
De novo genome assembly of the stress tolerant forest species Casuarina equisetifolia provides insight into secondary growth (Ye et al)
https://onlinelibrary.wiley.com/doi…
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**Describe the bug**
When I try to perform Motif.scan_all on HNF1A, I get segmentation fault
**To Reproduce**
Steps to reproduce the behavior:
1. Export whole genome sequence
2. Take MA0046.2 …
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--Hi,
i run this command:
ref_fasta=GRCh38_p13.fa
map_file=Homo_sapiens.GRCh38.dna.primary_assembly.fa.r101.s501.blacklist.gz
delly_v1.1.6 cnv -u -z 1000 -i 90000 -b my.bed -o my.bcf -c my.c…
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Thank you for the very useful function.
I was wondering if it would be possible to add different cut-offs lines for each trait in a circular Manhattan plot. I am actually using the CMplot function …
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Hello Jonas,
Thank you for your very interesting tool.
After omitting the genome frokm my code and kept on regions = StringToGRanges(Links(object[['ATAC']])$peak), it was successfully executed. The…