User: pufferfish

gravatar for pufferfish
pufferfish260
Reputation:
260
Status:
Trusted
Location:
South Africa
Last seen:
8 months ago
Joined:
9 years, 3 months ago
Email:
a*****@gmail.com

Posts by pufferfish

<prev • 25 results • page 1 of 3 • next >
0
votes
1
answer
1.2k
views
1
answer
Where to find beadpool IDs for all (or most) Illumina Arrays
... We're developing custom content for an Illumina Human BeadChip genotyping array, and part of this analysis involves looking into *all* existing beadpools that Illumina has used on their arrays (Human, genotyping). It looks like I can get this from the manifest files on the Illumina support page, b ...
annotations snp genotyping written 4.3 years ago by pufferfish260 • updated 3.2 years ago by jean.christophe.grenier0
0
votes
1
answer
5.0k
views
1
answers
Comment: C: Reorder samples in a PLINK dataset
... ah.. plink2! ...
written 6.1 years ago by pufferfish260
8
votes
1
answer
5.0k
views
5 follow
1
answer
Reorder samples in a PLINK dataset
... Is it possible to reorder samples in a PLINK dataset, per an order specified in a second file?  I've tried the "--keep" and "--recode" options, but they don't do it ...
plink written 6.1 years ago by pufferfish260 • updated 6.1 years ago by chrchang5237.1k
0
votes
3
answers
4.5k
views
3
answers
Comment: C: Sample Cel File Dataset For Affymetrix Axiom Genotyping Platform
... That data is SNP6, not Axiom ...
written 7.0 years ago by pufferfish260
0
votes
3
answers
4.5k
views
3
answers
Comment: C: Sample Cel File Dataset For Affymetrix Axiom Genotyping Platform
... Didn't occur to me to check GEO. Doesn't seem to have any Axiom datasets though ...
written 7.0 years ago by pufferfish260
0
votes
3
answers
4.5k
views
3
answers
Comment: C: Sample Cel File Dataset For Affymetrix Axiom Genotyping Platform
... Thanks, but I'm looking for Axiom data. Mentioned in the title and have now added to the question text ...
written 7.0 years ago by pufferfish260
2
votes
3
answers
4.5k
views
3
answers
Sample Cel File Dataset For Affymetrix Axiom Genotyping Platform
... I'm looking for a dataset that can be used to test students' ability to do genotype calling using the Affymetrix Power Tools pipeline. As such, it should ideally: come with known genotypes contain more than one ancestral group (for testing ability to find structure etc) not be too well known, ...
affymetrix written 7.0 years ago by pufferfish260
2
votes
2
answers
6.7k
views
2
answers
Answer: A: List Of Snps On Illumina Omni 5M Genotyping Array
... Seems the UCSC database has it: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/snpArrayIlluminaHumanOmni1_QuadRaw.txt.gz ...
written 8.3 years ago by pufferfish260
2
votes
1
answer
1.8k
views
1
answer
Remove Linked Markers Before Combining Populations, Or Afterward
... Various population genetics analyses have a requirement that the provided genotypes are only of unlinked markers. This can be easily accomplished with PLINK using the --indep-pairwise flag. When working with different populations, should one remove the linked markers per population, and then merge ...
population plink snp written 8.3 years ago by pufferfish260 • updated 8.3 years ago by Zev.Kronenberg11k
0
votes
2
answers
6.7k
views
2
answers
Comment: C: List Of Snps On Illumina Omni 5M Genotyping Array
... Yes. The response was that it's only available in "iControl DB" or the support files, which is restricted to Illumina customers. Can't fathom why a company would make this information hard to find. ...
written 8.3 years ago by pufferfish260

Latest awards to pufferfish

Popular Question 11 months ago, created a question with more than 1,000 views. For Where to find beadpool IDs for all (or most) Illumina Arrays
Popular Question 20 months ago, created a question with more than 1,000 views. For Clumpp For Hierarchical Clustering
Appreciated 2.4 years ago, created a post with more than 5 votes. For List Of Dbsnp Rsids And Their Positions
Great Question 2.4 years ago, created a question with more than 5,000 views. For List Of Snps On Illumina Omni 5M Genotyping Array
Epic Question 2.4 years ago, created a question with more than 10,000 views. For List Of Dbsnp Rsids And Their Positions
Popular Question 3.8 years ago, created a question with more than 1,000 views. For Reorder samples in a PLINK dataset
Student 3.8 years ago, asked a question with at least 3 up-votes. For Local Mirror Of Biological Databases
Great Question 4.3 years ago, created a question with more than 5,000 views. For List Of Dbsnp Rsids And Their Positions
Popular Question 4.3 years ago, created a question with more than 1,000 views. For List Of Snps On Illumina Omni 5M Genotyping Array
Popular Question 5.6 years ago, created a question with more than 1,000 views. For List Of Snps On Illumina Omni 5M Genotyping Array
Popular Question 5.6 years ago, created a question with more than 1,000 views. For Reorder samples in a PLINK dataset
Popular Question 5.6 years ago, created a question with more than 1,000 views. For Plot Of Exons In R
Popular Question 5.9 years ago, created a question with more than 1,000 views. For List Of Snps On Illumina Omni 5M Genotyping Array
Popular Question 6.0 years ago, created a question with more than 1,000 views. For List Of Snps On Illumina Omni 5M Genotyping Array
Popular Question 6.2 years ago, created a question with more than 1,000 views. For Generate Kegg Imagemaps Programmatically
Student 8.7 years ago, asked a question with at least 3 up-votes. For Local Mirror Of Biological Databases
Popular Question 8.8 years ago, created a question with more than 1,000 views. For List Of Dbsnp Rsids And Their Positions
Student 9.0 years ago, asked a question with at least 3 up-votes. For Plot Of Exons In R
Student 9.0 years ago, asked a question with at least 3 up-votes. For Generate Kegg Imagemaps Programmatically

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1452 users visited in the last hour