User: Greg Tyrelle

gravatar for Greg Tyrelle
Greg Tyrelle70
Reputation:
70
Status:
Trusted
Location:
Netherlands
Website:
http://www.completegen...
Last seen:
4 years, 5 months ago
Joined:
8 years, 9 months ago
Email:
g***@nodalpoint.org

Application Science team @ Complete Genomics.

Posts by Greg Tyrelle

<prev • 11 results • page 1 of 2 • next >
0
votes
2
answers
5.8k
views
2
answers
Comment: C: Variant callers for Ion Torrent data?
... The github source is not what you want for the stand-alone variant caller. See this page on the Ion Community: http://ioncommunity.lifetechnologies.com/docs/DOC-8932 ...
written 4.5 years ago by Greg Tyrelle70
0
votes
1
answer
4.4k
views
1
answers
Comment: C: Expected Snp Allele Frequencies In Tumor Samples
... Is this a drug resistance study ? Do you plan to calculate any somatic changes after drug exposure ? ...
written 6.9 years ago by Greg Tyrelle70
0
votes
5
answers
47k
views
5
answers
Comment: C: What Is The Difference Between Hg18 And Hg19?
... It was a release timing issue for UCSC, rather than a difference between revisions. ...
written 7.1 years ago by Greg Tyrelle70
0
votes
5
answers
47k
views
5
answers
Answer: A: What Is The Difference Between Hg18 And Hg19?
... The only difference I know between the GRCh37 (b37) build and hg19 is for chrM. See here: https://lists.soe.ucsc.edu/pipermail/genome-announce/2009-July/000169.html ...
written 7.1 years ago by Greg Tyrelle70
0
votes
4
answers
8.6k
views
4
answers
Comment: C: Where Can I Find Data Sets Of Cancer Publicly Available?
... Few points on the CG data: it is from cell-lines, so not applicable if you're planning to bench mark variable fraction allele callers. In addition, converting CG data to BAM is a pain, and would require variant calling algorithms that are tuned to the characteristics of CG's mated gap ...
written 7.2 years ago by Greg Tyrelle70
2
votes
3
answers
3.0k
views
3
answers
Answer: A: Publicly Available Whole Genome Or Exome Sequence Of A Quartet?
... If the data you are looking for does not need to include effected individuals, Complete Genomics has sequenced a 3 generation 17 member family (CEPH). Files here: ftp://ftp2.completegenomics.com/Pedigree_1463/ASM_Build37_2.0.0 ...
written 7.3 years ago by Greg Tyrelle70
0
votes
3
answers
3.0k
views
3
answers
Comment: C: Publicly Available Whole Genome Or Exome Sequence Of A Quartet?
... Interesting, I couldn't see any way to download the files associated with that experiment from ENA. There are no FTP or Aspera links. ...
written 7.3 years ago by Greg Tyrelle70
2
votes
2
answers
2.7k
views
2
answers
Answer: A: 1000 Genomes Yri Trio, Ncbi36/37 And Rs334
... You can get recent whole genome datasets for the YRI trio on b37 from the Complete Genomics public data release. ftp://ftp2.completegenomics.com/YRI_trio/ASM_Build37_2.0.0/ The files for a full genome distribution are bundled in tar files, the one that contains the variants is (e.g. 19240): ftp: ...
written 7.3 years ago by Greg Tyrelle70
1
vote
1
answer
2.0k
views
1
answers
Comment: C: How To Distinguish Ref Allele And Null (Not Sequenced) In Ngs Snp Calling?
... Are you asking how people are representing null or no-calls in data output formats ? Or a method for determining whether an allele is no-called or reference. The former is represented as '.' vs. '0' for ref in VCF. The latter is a matter of debate, however heuristics still seem to be the order of th ...
written 7.4 years ago by Greg Tyrelle70
0
votes
7
answers
4.9k
views
7
answers
Comment: C: Searching For Mouse Regulatory Motifs
... TAMO will do motif search and discovery. ...
written 8.8 years ago by Greg Tyrelle70

Latest awards to Greg Tyrelle

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2475 users visited in the last hour