I'm attempting to download a ton of protected GTEx data using sratoolkit.
Using fastq-dump alone for accession numbers is painfully slow....
8 results in 0.0022 seconds.
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SRAtoolkit - prefetch and fastq-dump problems
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fastq-dump problem
Hi all!
I'm trying to run fastq-dump on a cluster I never worked before and it doesn't work.
On the other cluster - never had... -
Truncated File: Trouble with SRA > Fastq > Sam
Hi everyone,
I know there have been several posts regarding truncated SAM files, but I'm having a difficult time finding a solution.... -
Convert SRA to FASTQ with fastq-dump but problem of read length
Hello,
I have Illumina paired end reads of length 76bp.
The problem is that when I use fastq-dump to obtain two files with paired reads... -
Installing a command/program to a remote computer
I downloaded fastq-dump. While it does the job on my personal computer, it runs very slow.
I have access to a remote computer that can... -
sratoolkit v.2.3.1
Has anyone tried the sratoolkit (v.2.3.1) that is currently available from NCBI SRA. The development kit user guide documentation seems to refer to *two*... -
fastq-dump for dummies
Can someone provide a dummies guide to fastq-dump? I mean a really dumb guide: download here, install here, open it by doing this, do this to an sra to...Last edited by UpsetNotMad Scientist; 10-26-2012, 09:52 AM. -
fastq-dump for Illumina
Hi all,
Does anybody know whether it will be kosher to use the default settings of fastq-dump (Q=33) for Illumina datasets ? I am not...
