User: rkostadi

gravatar for rkostadi
rkostadi60
Reputation:
60
Status:
New User
Location:
Last seen:
9 months, 2 weeks ago
Joined:
2 years, 5 months ago
Email:
r*******@gmail.com

Posts by rkostadi

<prev • 7 results • page 1 of 1 • next >
3
votes
1
answer
798
views
1
answers
Comment: C: Calculating Coverage Using CIGAR String
... Why don't you remove `vector lens` and instead have `int total=0;` and `total+=it->Length()` inside the loop and `cov = total*1.0/(end-start+1)`? ...
written 16 months ago by rkostadi60
0
votes
16
answers
4.8k
views
16
answers
Answer: A: Which Application Is Truly Missing In Bioinformatics?
... I am looking for one that gives me the answer to life, the universe and everything. I guess something like echo "42". Killer apps need killer problems to solve. ...
written 21 months ago by rkostadi60
0
votes
3
answers
787
views
3
answers
Answer: A: considerations for epiallele studies (DNA methylation Bisulfite Sequencing)
... Who is they? Can you provide a reference? There's no reason to exclude longer CpG methylation haplotypes from the analyses. I consider 5- and 6- long ones too. Average CpG to neighboring CpG distance is about 100bp, median is about 40bp for the human genome, that's why with paired end sequencing you ...
written 21 months ago by rkostadi60
0
votes
4
answers
709
views
4
answers
Answer: A: Highly Variable SNP
... Data from the 1k human genomes has ALT allele frequencies. I would download it from: https://mathgen.stats.ox.ac.uk/impute/1000GP_Phase3.html And, then select biallelic SNPs with high frequency of ALT allele (columns 6-10). ...
written 23 months ago by rkostadi60
1
vote
10
answers
1.6k
views
10
answers
Comment: C: What is the most suitable file format for storing sequence alignments and associ
... If you have assembled each genome from reads, so that you have one sequence string per genome, and you have performed multiple sequence alignment on all assembled genomes, then the nexus format is best suited for downstream purposes, such as tree inference and annotation correlations. However, from ...
written 23 months ago by rkostadi60
1
vote
2
answers
1.5k
views
2
answers
Answer: A: Comparing WGS, WXS, and SNP Array data
... The key is to get the break points right. See if the 3 segmented wgs wxs array profiles get the same or different break points for CN events. Segmentation is art. Also, all 3 platforms will give you allelic imbalance information, use it. Evaluate # of events called by 1,2,3, concordance in break po ...
written 23 months ago by rkostadi60
1
vote
3
answers
744
views
3
answers
Answer: A: parsing fasta file
... fold -w 60 input.fa ...
written 23 months ago by rkostadi60

Latest awards to rkostadi

Commentator 16 months ago, created a comment with at least 3 up-votes. For C: Calculating Coverage Using CIGAR String

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1908 users visited in the last hour