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Hi,
I'm trying to apply the pipeline described here https://benjjneb.github.io/LRASManuscript/LRASms_Zymo.html using 1.31 version of dada2. But I'm not getting the same number of filtered reads. Al…
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Is it possible to update the `conda` package for `sra-tools` ([here](https://anaconda.org/bioconda/sra-tools)). Right now it is at version 2.10.1.
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Hi,
This issue was observed on Ubuntu 22.04, when using the `download.SRA` function for the first time, the SRA toolkit which is downloaded does not match the Linux distribution.
`sratoolkit.2.1…
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Hi, Tanya. Can you please prepare a table that lists…
+ [x] the number of GitHub watchers, stars, and forks for each formula in Homebrew/science that has a GitHub a repo https://github.com/Linuxbre…
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I am trying to download files from project GEO series [GSE132044](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE132044). From what I can tell, most (if not all) of the associated runs are pair…
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Passing the `--quiet` flag to prefetch does nothing. From the help, I would expect it to print nothing (or very little) to standard out.
With the quiet flag:
```
$ /projects/resources/software/…
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I just started learning how to download FASTQ. So, I installed sratoolkit.3.0.7, and to do config, I run ./vdb-config, but I got an error message, Abort trap: 6.
my mac is old system, version 10.15.7…
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## 🐛 Bug
Trying to compile pytorch 1.7.1 from source, but it is using the wrong compiler.
Setting the CC / CXX variables seem to have no effect.
I am not admin on the machine, I only have access …
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Hi,
I'm using CentOS Linux 7. I tried to download a dataset from dbGap with the command: $/path-to-your-sratoolkit-installation-dir/bin/prefetch --ngc /path-to-ngc-file-dir/xxxxx.ngc /path-to-your-c…
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It seems like the NCBI APIs are incompatible with the current version of [sratools](https://github.com/ncbi/sra-tools) (I _think_), so the latter must be updated in the [fasterq-dump container](https:…