User: DragonDNA

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DragonDNA100
Reputation:
100
Status:
Trusted
Location:
Durham
Last seen:
1 week, 5 days ago
Joined:
1 year, 6 months ago
Email:
s**************@hotmail.com

Posts by DragonDNA

<prev • 26 results • page 1 of 3 • next >
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Comment: C: Samtools faidx non-zero exit status 217
... Just wondering, does samtools itself work when you type samtools? As the manual says, "if a command is not found, the child process created to execute it returns a status of 127" [GNU][1] [1]: https://www.gnu.org/software/bash/manual/html_node/Exit-Status.html ...
written 5 weeks ago by DragonDNA100
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Comment: C: Extracting allel, Genotype from VCF file
... how about [VCFtools][1]? [1]: https://vcftools.github.io/man_latest.html ...
written 7 weeks ago by DragonDNA100
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Comment: C: any tool to join reads regardless of overlap?
... Not sure I understand what you mean, but for merging paired reads for instance there is this tool https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/bbmerge-guide/ ...
written 7 weeks ago by DragonDNA100
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Comment: C: BWA MEM -T option. What does really do and how?
... Heng says "-T sets a threshold on the alignment score, not mapping quality. Alignment score is shown in the AS:i: SAM tag. The alignment score is determined by the scoring scheme, which is specified by -A, -B, -O and -E." https://sourceforge.net/p/bio-bwa/mailman/message/30624738/ ...
written 10 weeks ago by DragonDNA100
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Comment: C: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
... This is BRILLIANT! I just tried removing duplicates using few small RADseq and deep full genome fastq files and inspected my results carefully. Simple, transparent, easy & user friendly, memory efficient & pretty fast, and makes a lot of sense doing this to fastq files! I won't criticize the ...
written 10 weeks ago by DragonDNA100
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Comment: C: LOSITAN - illegal URL redirect
... aesculus, you can download it together with complete Lositan from the prior page https://github.com/BaskiGIT/lositan you will need some scripting in windows, but I myself cant stop thinking, should we really try to bring a dead program published 10 years ago and apparently abandoned by its owner, ba ...
written 10 weeks ago by DragonDNA100
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Answer: A: How does FASTQ format show a diploid sequence.
... It uses the ambiguity codes. For example "nucleotide" Y means that position is heterozygote for C and T nucleotides. If you have a Y in your sliding window, PSMC calls that window to have heterozygosity. SNPs are converted into these IUPAC codes to represent diploid information in a haploid-like si ...
written 3 months ago by DragonDNA100
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Comment: C: LOSITAN - illegal URL redirect
... I have the same problem, pretty sure never changed my Java version or any of its settings since the last time I ran it successfully few months ago, perhaps nothing we can do and the program is finally down. ...
written 3 months ago by DragonDNA100
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Comment: C: Problem launching LOSITAN
... I have the same issue, I guess it may have to do with the origin of the software, it works online and needs to connect to its server, that's where it is failing. ...
written 3 months ago by DragonDNA100
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Fetch Phenotypes from Orthologues and GO terms for a NonModel organism Gene Set
... Hi all, What I am trying to do is simply a way to get a table which would connect my genes to phenotypes, As an example when I search ENSACAG00000010391 on ensembl.org, I can find them manually when I click Phenotypes on left, hits go like this: decreased circulating potassium level MGI Mouse (M ...
ensembl biomart gene ontology written 9 months ago by DragonDNA100 • updated 9 months ago by Emily_Ensembl15k

Latest awards to DragonDNA

Supporter 9 months ago, voted at least 25 times.
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: Kallisto New RNA-seq quantification method discussion

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