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Hi, I'm trying to download phenotype data files from dbGap using the prefetch tool but haven't had any success.
Command:
/Users/dmurdock/Desktop/sratoolkit.3.0.1-mac64/bin/prefetch --ngc my_ngc_f…
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Hi again,
I am actually still facing an issue with the mouse data I have. When I try to run on a set of fastq files downloaded from NCBI I get the following error:
(snakemake) [smegat@hpc-login1…
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:clipboard: **Description**
Could you provide a badge for google scholar?
This badge is used to show how many times a paper is cited.
e.g: "cited by | 283"
![image](https://user-images.githubu…
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Greetings ffq developers,
Could anyone help explain a bit why my first attempt to fetch the accession information from one paper (https://doi.org/10.1016/j.cell.2023.01.034) fails, while my second …
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**Describe the bug:**
Preprocessing module is failing due to different number of reads in paired input files either at step 2 (Bowtie2) or step 3 (Bbduk). I believe this is meant to be fixed automati…
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When I search
```
pysradb metadata PRJNA242847 --detailed --saveto my_file
```
and it gives this error
```
Traceback (most recent call last):
File "/data/apps/modules/software/Anaconda3/2020…
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**Describe the bug**
"import from geo" script uses the following endpoint:
```
http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?save=efetch&db=sra&rettype=runinfo&term={srp_accession}
```
passing an …
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Hi I'm trying to download SRR11947587 and am getting the following response
```
$ prefetch -X u SRR11947587
2022-08-30T15:59:20 prefetch.3.0.0: Current preference is set to retrieve SRA Normal…
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Dear Xie et al.,
Thanks for your great work. I enjoyed reading your paper.
I noticed that you have made only the HG002 reads available in the SRA. Would it be possible for you to share the assem…
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Dear NCBI developer.
I wanted to use the new fasterq-dum tool to download 1000 fastq files. As recommended I used prefetch to get a sra files. Then I tried to extract the fastq files with fasterq…