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### Expected behavior
These data were identified by Nicolete (SigSci) Updates from Nicolette - https://docs.google.com/document/d/1uYqs939MU55D_3La8RUc8NJIYVrjLmVD-q_Tw5_Bjbg/edit
Viral DNA spike…
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Hello,
I am trying to download only some runs from PRJNA688881 with the following command:
.\prefetch --output-directory healthy_sra -p -H 5 SRR13336836 SRR13336835 SRR13336834 SRR13336833 SRR1333…
uasic updated
3 months ago
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Upon trying to download the test project as provided in the readme, an error occurs claiming that the site cannot be accessed (No such directory ‘sra/sra-instant/reads/ByRun/sra/SRR/SRR013/SRR013549’.…
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Does this work with SRA Lite?
https://ncbiinsights.ncbi.nlm.nih.gov/2021/10/19/sra-lite/
moqri updated
7 months ago
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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…
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Looks like some changes on the NCBI side lead to failures in SRA downloads:
```bash
grabseqs sra SRR11733975
Traceback (most recent call last):
File "/users/cdiener/miniconda3/envs/sra/bin/gra…
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### Context
```
If you haven't seen it, there is an API for looking for locations of files from SRA. It includes the ability to get data from the cloud as signed URLs. I've done some small tests a…
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**Tool Details**
- Name of tool: TPMCalculator
- Tool homepage: https://github.com/ncbi/TPMCalculator
- Tool description: TPMCalculator: one-step software to quantify mRNA abundance of genomic f…
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Home page: https://github.com/ncbi/sra-tools
Installation from source: https://github.com/ncbi/sra-tools/wiki/Building-and-Installing-from-Source
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### Description of the bug
I used these IDs as input:
```
SRR26943528
SRR26943529
```
I was unable to retrieve the download links. [`ffq`](https://github.com/pachterlab/ffq) said that NCBI i…