User: Dataman

gravatar for Dataman
Dataman310
Reputation:
310
Status:
Trusted
Location:
Finland
Last seen:
20 hours ago
Joined:
5 years, 4 months ago
Email:
b******************@yahoo.com

Bioinfotmatics Master's student!

Posts by Dataman

<prev • 67 results • page 1 of 7 • next >
0
votes
3
answers
13k
views
3
answers
Answer: A: Recommendations For Python Vcf Parser/Writer?
... I know this question is rather old and has an answer but it is still a relevant question. A recent, alternative for parsing VCF files in Python (both versions 2 and 3) is `cyvcf2` which is made by two well known bioinformaticians: Brent Pedersen and Aaron Quinlan. GitHub link: http://brentp.github ...
written 10 days ago by Dataman310
0
votes
1
answer
14k
views
1
answers
Comment: C: What is the difference between narrow peak, Broad peak and a gapped peak of a c
... Hi! The link to the forum is broken. Is it possible to update it? ...
written 6 weeks ago by Dataman310
2
votes
3
answers
19k
views
3
answers
Comment: C: ATAC-seq peak calling with MACS
... The link to the workflow/workshop is broken. The working link is: http://informatics1.rc.fas.harvard.edu/atac-workshop-capellini-lab.html ...
written 6 weeks ago by Dataman310
0
votes
4
answers
9.9k
views
4
answers
Comment: C: How To Count The Reads Mapped To Exon And Exon-Exon Junctions?
... you have an extra `-` in your command. The correct way would be ```bedtools multicov a.bam b.bam annotation.bed > multicov.txt```. ...
written 7 weeks ago by Dataman310
1
vote
0
answers
3.1k
views
0
answers
Comment: C: vcfanno quickly annotate a vcf with other VCFs, BEDs, BAMs
... Hi, Thank you for this great tutorial! The link for CADD is broken. Would you please update it? Thank you in advance! ...
written 9 weeks ago by Dataman310
0
votes
1
answer
2.3k
views
1
answers
Comment: C: Quality Control Software For Targeted Sequencing?
... Also in the latest versions of `Picard` there is a command that helps one to make such intervals from `Bed` files. They are: `picard BedToIntervalList`. This command requires a sequence dictionary that can be made using: `picard CreateSequenceDictionary`. ...
written 9 months ago by Dataman310
0
votes
1
answer
2.3k
views
1
answers
Comment: C: Quality Control Software For Targeted Sequencing?
... The link above is broken. Here is a currently unbroken link to `CollectTargetedPcrMetrics`: https://software.broadinstitute.org/gatk/documentation/tooldocs/4.0.5.0/picard_analysis_directed_CollectTargetedPcrMetrics.php ...
written 9 months ago by Dataman310
0
votes
2
answers
22k
views
2
answers
Comment: C: What Makes One Probability Distribution Better For Rna-Seq Than Another?
... the link was broken. Here is the link: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0016327 Look for figure 1. ...
written 18 months ago by Dataman310
0
votes
7
answers
3.3k
views
7
answers
Comment: C: Why Is Snp Data Generally Restricted?
... Maybe this article be helpful for your latter question: http://science.sciencemag.org/content/305/5681/183 ...
written 23 months ago by Dataman310
0
votes
3
answers
120k
views
3
answers
Comment: C: Forward And Reverse Strand Conventions
... > For 50% of genes, its coding strand will correspond to the chromosome's forward strand, and for the other 50% it will correspond to the reverse strand. Would you please elaborate where these numbers are coming from? And why exactly 50-50%? Thanks! ...
written 23 months ago by Dataman310

Latest awards to Dataman

Popular Question 5 months ago, created a question with more than 1,000 views. For what does Num_Probes in a segmentation file refer to?
Popular Question 15 months ago, created a question with more than 1,000 views. For what does Num_Probes in a segmentation file refer to?
Epic Question 16 months ago, created a question with more than 10,000 views. For samtools bedcov vs. bedtools coverage
Popular Question 20 months ago, created a question with more than 1,000 views. For what does Num_Probes in a segmentation file refer to?
Great Question 2.4 years ago, created a question with more than 5,000 views. For samtools bedcov vs. bedtools coverage
Popular Question 2.5 years ago, created a question with more than 1,000 views. For What is the best way to make a bam file smaller by removing unwanted information?
Popular Question 3.0 years ago, created a question with more than 1,000 views. For Does one need to sort and index after performing a rmdup in Samtools?
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Breaking down the reference genome chromosome-wise
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Breaking down the reference genome chromosome-wise
Good Question 3.5 years ago, asked a question that was upvoted at least 5 times. For samtools bedcov vs. bedtools coverage
Appreciated 3.5 years ago, created a post with more than 5 votes. For samtools bedcov vs. bedtools coverage
Student 3.5 years ago, asked a question with at least 3 up-votes. For samtools bedcov vs. bedtools coverage
Voter 4.3 years ago, voted more than 100 times.
Supporter 5.3 years ago, voted at least 25 times.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2344 users visited in the last hour