DeBreak

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Dear Dr Chen. I work with species, genome of which has a high number of genome rearrangements. Because of that I can assembly only diploid version of genome with Flye....

Alteroldis

Hello! After using debreak to detect structural mutations, I noticed that all the values in the QUAL column of the output results were '. How can I assess the quality...

JiaB-He

Variant read depth

1

Hello! I've noticed the number of reads supporting the variant is reported, but I'd like to ask if there's any plans of implementing the reporting of the reference reads for...

Akazhiel

File "/home/miniconda3/envs/DeBreak_env/bin/debreak", line 275, in debreak_gt=multiprocessing.Pool(debreak_args.thread) File "/home/miniconda3/envs/DeBreak_env/lib/python3.8/multiprocessing/context.py", line 119, in Pool return Pool(processes, initializer, initargs, maxtasksperchild, File "/home/miniconda3/envs/DeBreak_env/lib/python3.8/multiprocessing/pool.py", line 212, in __init__ self._repopulate_pool() File "/home/miniconda3/envs/DeBreak_env/lib/python3.8/multiprocessing/pool.py", line 303, in _repopulate_pool...

XuYan000131

I have two question when I run debreak, I found some error info like: **ERROR: failed to open file 'C16_C_debreak/debreak_resdup_insertseq/chr1__2353209__247__4.fa' ERROR: failed to open file 'C16_C_debreak/debreak_resdup_insertseq/chr1__10465276__4539__8.fa'** But I get the...

LileeGao

Hi @Maggi-Chen , I gave debreak (DeBreak_v1.0.2) a try, using the test dataset and I ran into the following error message (see below). Seems to me **'test_out/tra-merged-*'** and **test_out/debreak_poa_workspace/** were...

Huanle

Hi! I used Debreak to compare my assembly to a reference genome which is haploid. And I am confused by the genotype information in the Vcf file. For example, This...

YomnaGohar

If I want to detect somatic SVs with matched tumor and normal data by subtracting SVs present in both normal and tumour, should i use `--tumor` with the tumor data...

eesiribloom