User: student-t

gravatar for student-t
student-t410
Reputation:
410
Status:
Trusted
Location:
Australia
Website:
http://www.smallchess....
Twitter:
scchess
Last seen:
18 hours ago
Joined:
2 years, 8 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

<prev • 101 results • page 1 of 11 • next >
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Comment: C: Randomly Split A Fastq File
... This answer is wrong and should be given -1. ...
written 9 weeks ago by student-t410
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5
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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 4 months ago by student-t410
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1
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Comment: C: Bug in RUV spike-in normalization?
... Tell me what he responds. ...
written 5 months ago by student-t410
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Comment: C: Individual whole genome sequence data download FASTQ
... File not found... Can you please check? ...
written 6 months ago by student-t410
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2
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296
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2
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How to fix my broken GTF file?
... 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 ...
gtf written 7 months ago by student-t410 • updated 7 months ago by Ryan Dale4.6k
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1
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229
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How should I choose? Decoy or not?
... 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 ...
genome written 7 months ago by student-t410
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Comment: C: How to count SNPs, InDels
... Alex's solution is faster and better. ...
written 8 months ago by student-t410
1
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0
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228
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6 follow
0
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Management software for my samples?
... 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 ...
rna-seq sequencing written 8 months ago by student-t410
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Comment: C: Automatic IGV snapshot script
... I've forked the project. It works. +1. Well done! ...
written 8 months ago by student-t410
0
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1
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386
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Comment: C: How to sort VCF "chr1, chr2..."
... I've edited my question to address your concerns. ...
written 9 months ago by student-t410

Latest awards to student-t

Commentator 8 weeks ago, created a comment with at least 3 up-votes. For C: Develop an R package for CRAN vs BioConductor
Centurion 9 weeks ago, created 100 posts.
Popular Question 4 months ago, created a question with more than 1,000 views. For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
Popular Question 6 months ago, created a question with more than 1,000 views. For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
Popular Question 6 months ago, created a question with more than 1,000 views. For Help: velvetg is trying allocate 2251799813685248 bytes
Popular Question 6 months ago, created a question with more than 1,000 views. For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
Appreciated 7 months ago, created a post with more than 5 votes. For A: Develop an R package for CRAN vs BioConductor
Popular Question 7 months ago, created a question with more than 1,000 views. For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
Popular Question 8 months ago, created a question with more than 1,000 views. For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
Commentator 10 months ago, created a comment with at least 3 up-votes. For C: Develop an R package for CRAN vs BioConductor
Good Answer 10 months ago, created an answer that was upvoted at least 5 times. For A: Develop an R package for CRAN vs BioConductor
Appreciated 10 months ago, created a post with more than 5 votes. For A: Develop an R package for CRAN vs BioConductor
Scholar 10 months ago, created an answer that has been accepted. For A: How cuffcompare calculates sensitivity and specificity?
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Can'T Locate Vcf.Pm Vcftools
Popular Question 11 months ago, created a question with more than 1,000 views. For DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
Autobiographer 11 months ago, has more than 80 characters in the information field of the user's profile.
Popular Question 15 months ago, created a question with more than 1,000 views. For How to run velvet multithreaded?
Popular Question 15 months ago, created a question with more than 1,000 views. For How to calculate overall coverage in de novo metagenomics assembly?
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Can'T Locate Vcf.Pm Vcftools
Popular Question 20 months ago, created a question with more than 1,000 views. For How to calculate overall coverage in de novo metagenomics assembly?
Scholar 2.4 years ago, created an answer that has been accepted. For A: How cuffcompare calculates sensitivity and specificity?
Voter 2.5 years ago, voted more than 100 times.
Supporter 2.6 years ago, voted at least 25 times.

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