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### Version
1
### DataCap Applicant
Nixon
### Project ID
1
### Data Owner Name
NLM
### Data Owner Country/Region
United States
### Data Owner Industry
Life Science / Healthcare
### Website…
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- [ ] check the runinfo to make sure the sample can be combined (i.e. same pairedness, insert size, read length)
- [ ] make sure we don't process the same file twice
- [ ] concatenate output file…
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**Deliverable this task is associated with**
_See Deliverables tab here: _
- [Add the Deliverable #]
**RACI**
_Tag people in their roles_
- Responsible: @sujaypatil96, @chienchi
- Acc…
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The goal is to develop an ETL script to convert NMDC submissions to NCBI submissions using version 6.0 MIxS packages. We will start by developing support for the following packages:
- soil
- water
…
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Extrapolated from common sequencing targets from the SRA, and sequences that returned false positives during initial database screenings:
- Human genome - integration sites: https://hgdownload.soe.…
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### Description of the bug
I have a list of SRR IDs in a file and am trying to download them using the pipeline. However, I constantly get an error at the SRATOOLS_FASTERQDUMP step.
This is an exa…
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When running prefetch on a particular dataset I'm seeing a message about 'unresolved dependencies':
And then when I try fasterq-dump on the prefetched dataset I get the following error:
Any …
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Hi,
I have downloaded SRR files and now tend to use parallel-fastq-dump convert them to .fastq.gz files
when i run "parallel-fastq-dump -t 4 -O ./fastq --split-files --gzip -s /public/home/mengqx/de…
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### Problem Description
@jmtsuji This code fails.
```markdown
# For the long read data, to get the quality scores (i.e., not SRA Lite format), you will need to use the SRA Toolkit
# availab…
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We discovered, that fastq files downloaded from NCBI SRA via fasterq_dump are different to the ENA stored fastq files. After some digging, this is probably due to the `--clip` option.
Example downl…