-
Hi @DCGenomics,
Do you have a list of project titles and maybe the description of them from previous hackathons you were involved in? We would like to see what a successful project look like and prov…
-
```
Use specs laid out by David, Dan, Charlie, lab
DNA/RNA
- subtype
- DNA
- mRNA
- total RNA
- cDNA
- random primed
- oligoDT
- mtDNA
- chip DNA
- chroma…
-
Hi,
I'm trying to run Trinity v2.1.0 on fastq file downloaded from the NCBI Sequence Read Archive (id SRR688037). I downloaded the raw reads using this command
```
fastq-dump -v SRR688037 --split-f…
-
Newer versions of fastq-dump apparently attempt to access NCBI resources via some network port (not standard http), even when all of the required resources are local (retrieved with prefetch). This i…
-
Hi all,
We are currently working on SRA tool. Our client need a separate instance to view the advancement in the project more or less like a sandbox. Could you please suggest the way to create a new i…
-
A post-doc who is setting up a new bioinformatics lab asked, "Where should I store the data?" Right now, her group has samples in a freezer and sequence data from them archived on a couple of portabl…
-
My script for installing sra-tools from the github repository used to work (last month on the same computer it worked). Now it fails as follows (`` is for anonymization):
```
make[1]: *** No rule to …
-
- [ ] need raw data un-quality filtered for at least two genomes
- [ ] need a SNP matrix
- [ ] data and metadata should be available on Dryad or FigShare
-
I'm stumped on this one. I've compiled and installed ncbi-vdb and ngs from here, and make under sra-tools goes pretty far, but fails here:
```
make[3]: Entering directory `/root/ncbi-outdir/sra-tools…
-
Hi Hans, can you do a quick survey of the Illumina RNA-seq data sets that are available for Arabidopsis at the Short Read Archive (SRA) at NCBI? Basically use the Browse function available at http://w…