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Hello
I am trying to calculate the Fst for windows with a maximum number of SNPS e.g. windows have 100 SNPs.
I can do this from the raw a/ b values, but the problem is when I get to regions that…
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Hi, Szpiech,
I calculate the fraction of SNPs with |iHS| > 2 in 51 SNP windows in normalized iHS result and xpEHH result, respectively.
I found that there are around 30SNPs with |iHS| > 2 in 51 …
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Slope could tell us general difference but if there is no heterogeneity then that implies all the effects are relatively constant
* Obtain heterogeneity Q for pop1 exposure on pop2 exposure
* Get pe…
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Hi,
I run Gretel on different datasets. I've got this error message :
> [FAIL] Unable to recover pairwise evidence concerning SNP #15 at position 1077
Gretel needs every SNP to appear on …
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HI,
By lack of another spot to put this request, here goes.
I had gotten the information of these SNPs from ENSEMBL. Like so:
```
cat("\n* Loading ENSEMBL information on the 65 hm450K varian…
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Hi Graham,
I met a problem when I use the find_intersecting_snps.py. Could you please tell me how to fix it?
command line: /home/WASP-master/mapping/find_intersecting_snps.py --is_pair…
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It ran through successfully with the following log:
> DISCARD reads:
> unmapped: 264386
> mate unmapped: 558466
> improper pair: 740534
> different chromosome: 278758
> indel: 0
> …
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```
.........
COUNT NUMBER IN EACH BIN: 22
FINISHED FIRST ROUND: 38
1 3017904516
0 0
0 0
0 0
FINISHED RECURSIVE SORTS: 1142
SORT NODES: 1202
MERGE, UPDATE RANK: 156
Generation 4 (3017904516…
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Hi Gib and colleagues
Because R has a lower level of 1e-308 for numeric values, in more recent GWAS, it is quite common to have multiple SNPs in LD that have estimates with p-vals less than this. W…
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Hello,
I am running it this way
```
sh runkmercalling.sh 63 100 /media/alessandro/porsche_des/reads_ARC_ancestor/GC047403.100X.fa.gz
$1:kmer-size $2:homo coverage $3:input.fq
63 100 /media/ale…
ghost updated
4 years ago