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From tony:
Now that db-xrefs.yaml/json is in production, there is a small issue
that I think needs to be taken care of, concerning the use of
BET:0000000 as an entity_type.
BET:0000000 is used as th…
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### Data Owner Name
NIH - National Institute of Health
### What is your role related to the dataset
Data Preparer
### Data Owner Country/Region
United States
### Data Owner Industry
…
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Would it not be cool to have a website/user created database where people can submit their transrate scores? Make a competition of this so to speak, with the real goal to track innovation in assembly.…
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https://mp.weixin.qq.com/s/J0i5mhZKMj3PEP_p3-U2Wg
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First Trial
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I got this error when I ran RAPT on paired end illumina fastq files.
**Error: skesa failed with code -9
[2022-07-08 20:56:34] Sending PINGER url https://www.ncbi.nlm.nih.gov/stat?ncbi_app=raptdoc…
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Hi,
I'd like to map pair-ended reads to hg19 with nvBowtie. My bowtie2 call looks like this:
``` bash
bowtie2 --rg-id SRR891269 --rg SRR891269 -p 10 -x /path/to/hg19 -X 2000 -1 /path/to/SRR891269_GM1…
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Hello,
Can anyone point me to a reference to the code that is used by the SRA project to convert from a user's submitted FASTQ files to the VDB/.sra format that is stored then in the SRA? I know the …
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We are trying to use prefetch to download data. Command is:
$ ./sratoolkit.3.1.1-centos_linux64/bin/prefetch -vvv --ngc prj_20495_D27416.ngc SRR9228789
Message returned is:
2024-10-09T16:55:5…
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Basically 3 parts, each part should have its own shell script file:
1. Retrieving SRA files (.fastq format) using EDirect and SRA-toolkit.
2. Quality control - trimmomatic and fastqc
3. Assembly and v…