User: student-t
student-t • 380
- Reputation:
- 380
- Status:
- Trusted
- Location:
- Australia
- Website:
- http://www.smallchess....
- Twitter:
- scchess
- Last seen:
- 15 hours ago
- Joined:
- 2 years, 6 months ago
- Email:
- w**********@gmail.com
Bioinformatics engineer. Garvan Institute of Medical Research (https://www.garvan.org.au). Bioinformatics helps the world!
Posts by student-t
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0
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3
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Comment:
C: Randomly Split A Fastq File
... This answer is wrong and should be given -1. ...
written 5 days ago by
student-t • 380
0
votes
5
answers
2.0k
views
5
answers
Answer:
A: K-mers using JEllyfish
... Just use DSK. The software can take a single FASTA file.
dsk -abundance-min 0 -file A.V.10.fa -out ABCD
dsk2ascii -file ABCD.h5 -out ABCD.txt
Remember to specify the minimum abundance to zero. ...
written 11 weeks ago by
student-t • 380
0
votes
1
answer
293
views
1
answers
... Tell me what he responds. ...
written 3 months ago by
student-t • 380
0
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1
answer
2.4k
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1
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... File not found... Can you please check? ...
written 4 months ago by
student-t • 380
3
votes
2
answers
248
views
2
answers
... I have an incomplete GTF file with lines such as:
chr1 hg38_ct_UserTrack_3545 exon 94353 94355 2109 + . gene_id "R2_66"; transcript_id "R2_66_1";
This describes an exon. All the lines in my incomplete GTF file describe an exon or CDS.
**Question:**
I want to fix my GTF file. For instance, I ...
4
votes
1
answer
197
views
1
answer
... Whe I goto: ftp://ftp.broadinstitute.org/bundle/b37/, there are two FASTA files I can use for alignment:
- human_g1k_v37_decoy.fasta.gz
- human_g1k_v37.fasta.gz
The two files are very close in file size. As far as I understand, the decoy version is slighter faster. Other than that, anything e ...
written 5 months ago by
student-t • 380
1
vote
2
answers
3.0k
views
2
answers
Comment:
C: How to count SNPs, InDels
... Alex's solution is faster and better. ...
written 6 months ago by
student-t • 380
1
vote
0
answers
205
views
6 follow
0
answers
... I work in a small lab. Although small, we still have many samples (100+) for RNA-Seq, whole-genome sequencing etc. We have been using an Excel file to track our samples, such as:
- Who sequenced?
- What technology?
- What's the sequencing depth?
- File name
- ... and anything related to the s ...
written 6 months ago by
student-t • 380
0
votes
0
answers
546
views
0
answers
Comment:
C: Automatic IGV snapshot script
... I've forked the project. It works. +1. Well done! ...
written 6 months ago by
student-t • 380
0
votes
1
answer
344
views
1
answers
Comment:
C: How to sort VCF "chr1, chr2..."
... I've edited my question to address your concerns. ...
written 7 months ago by
student-t • 380
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For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
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For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
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For Help: velvetg is trying allocate 2251799813685248 bytes
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For A: Develop an R package for CRAN vs BioConductor
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For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
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For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
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For C: Develop an R package for CRAN vs BioConductor
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For A: How cuffcompare calculates sensitivity and specificity?
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For A: Can'T Locate Vcf.Pm Vcftools
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For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
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For How to calculate overall coverage in de novo metagenomics assembly?
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