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Forum: Bioinformatics 12-07-2012, 07:46 AM
Replies: 37
Views: 88,829
Posted By gsgs
there is another paper with 113 pages,...

there is another paper with 113 pages, "supplemental information"
http://www.nature.com/nature/journal/v491/n7422/extref/nature11632-s1.pdf

with a referrence:

...
38!...
Forum: Bioinformatics 12-05-2012, 11:38 AM
Replies: 37
Views: 88,829
Posted By gsgs
wait, I have a better idea. You compute the...

wait, I have a better idea.
You compute the genetical distance between any pair of two samples, 1092^2 integers,4MB.
Just the number of set bits in the logical xor of the two 37M-bit-vectors.
Then...
Forum: Bioinformatics 12-05-2012, 11:07 AM
Replies: 37
Views: 88,829
Posted By gsgs
no Y-chromosome ? how would I pack the data...

no Y-chromosome ?

how would I pack the data ?
I want the 1092*36.7M SNPs in 23 binary files, one per chromosome.
Bit i in chromosome j in file(sample) k should be set, iff that SNP is present....
Forum: Bioinformatics 12-05-2012, 08:37 AM
Replies: 37
Views: 88,829
Posted By gsgs
thanks. 10 pages the paper (pdf) ......

thanks.
10 pages the paper (pdf) ... printing...
2 pages the readme
that will keep me busy for a while ...
well, I'll probably only read and understand parts of it

I know, there is also the...
Forum: Bioinformatics 12-05-2012, 07:55 AM
Replies: 37
Views: 88,829
Posted By gsgs
I don't know yet. Probably compare them,...

I don't know yet.
Probably compare them, #mutations,distances
calculate the consensus,ancestor, plot the distances,
make my cloud-graphics(plot amino acid mutations over nucleotide mutations),
...
Forum: Bioinformatics 12-05-2012, 07:46 AM
Replies: 37
Views: 88,829
Posted By gsgs
currently I estimate (wild guess) you have ~500...

currently I estimate (wild guess) you have ~500 complete human genomes (1500GB)
at ~10fold coverage but they are scattered in lots of different formats and directories
and it would take me ~10...
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