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1000 Genomes Project Reports Invalid Alleles for SNPs?

1kg dbsnp snp genotyping written 8 weeks ago by SpacemanSpiffo • 10 • updated 8 weeks ago by RamRS ♦ 19k

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Are WGS cohorts with large numbers of global participants (larger than 1kg) publicly available?

wgs 1kg 1000 genomes written 11 months ago by Vincent Laufer • 1000

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429

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Looking for input on writing tool for analyzing haplotypes from 1KG

genome R 1kg haplotype snp written 17 months ago by dnygard • 0

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How to download SNP list of 1000 Genome

1000 genomes 1kg snp written 2.5 years ago by sinorenjianyi • 40

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Recent Replies

C: Network plot from expression data in R using igraph by Kevin Blighe ♦ 32k
That is a conundrum indeed! I read through the GitHub issue and it seems that there was no conse...
C: Where are mutation files (MAF) for TCGA normal samples on Firebrowse by -_- • 710
Not really. But I think the later is filtered is oncotator somehow
C: Where are mutation files (MAF) for TCGA normal samples on Firebrowse by -_- • 710
Not really. But I think the later is filtered is oncotator somehow
C: In GSEA, how can one "correlate" gene expression with categorical phenotype data by O.rka • 70
I will keep that in mind for the future. Thanks for the help even though this was out of scope. ...
C: How can I map certain values for gene locus against genome? by MAPK • 1.3k
Thank you so much, I just got it :)
C: How can I map certain values for gene locus against genome? by genomax ♦ 58k
Recall the NCBI unix utils answers provided by @vvkodali to one of your past questions. You shoul...
C: In GSEA, how can one "correlate" gene expression with categorical phenotype data by Kevin Blighe ♦ 32k
The negative r-squared is explained very well here: https://stats.stackexchange.com/questions/129...
C: How can I map certain values for gene locus against genome? by MAPK • 1.3k
Yes, that would do, but I need to get the `chr`, `start` and `end` information for the given loci...
C: How can I map certain values for gene locus against genome? by genomax ♦ 58k
[Manhattan plot][1] using R? [1]: https://www.r-graph-gallery.com/wp-content/uploads/2018/02/...
A: Network plot from expression data in R using igraph by ladypurrsia • 20
Thank you so much for this tutorial. I have applied it to my data and it works fantastic. I would...
C: In GSEA, how can one "correlate" gene expression with categorical phenotype data by O.rka • 70
Hey Kevein, thanks this is making a lot of sense once I plotted data. I don't know why but it al...
C: Is there some tools can convert a table file or a csv file in to a vcf file? by ATpoint ♦ 9.2k
Then share it with the community please. It might help others.

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