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privefl
/
bigsnpr
R package for the analysis of massive SNP arrays.
https://privefl.github.io/bigsnpr/
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List of used SNPs
#444
AbrahamVanDeWalle
closed
1 year ago
1
Running LDpred2 auto with reference sample
#413
lm380-r
closed
1 year ago
4
Delete backing files and folders?
#412
TongYu37
closed
1 year ago
2
LD reference for HapMap3+ variants
#411
johannfaouzi
closed
1 year ago
2
Suggested model with no individual-level training data
#410
Fiwx
closed
1 year ago
3
indexing beta_auto in per chromosome computation
#409
TC-gu
closed
1 year ago
7
Error in { : task 1 failed - "L-BFGS-B needs finite values of 'fn'"
#408
Mahantesh-Biradar
closed
1 year ago
14
Using own correlation matrix of LD values.
#407
boseb
closed
1 year ago
2
LDPred2 with custom reference panel
#406
sourena-s
closed
1 year ago
21
Trouble running LDpred2-auto with a reference panel
#405
lm380-r
closed
1 year ago
5
Question about models
#404
JuanJoMV
closed
1 year ago
4
Enable parallelism in big_counts()
#403
privefl
opened
1 year ago
0
'bigsnpr' problem in snp_ldsc(), dependent on version 1.10.8
#402
Anewgithubuse
closed
1 year ago
4
'bigsnpr' problem in snp_cor(), dependent on version
#401
NoraEszlari
closed
1 year ago
4
Extracting genotype data from imputed "bgen files" for certain variants using the 'bigsnpr" R package
#400
Musty1988
closed
1 year ago
6
Issues with LD reference in blocks
#399
lindseysinclair
closed
1 year ago
10
why calculate GWAS effective sample size for binary traits as (4 / (1 / n_case + 1 / n_control)) ?
#398
chunhuichen
closed
1 year ago
3
Give bigSNP object genotype col/row names?
#397
TongYu37
closed
1 year ago
2
model saturated
#396
xcliu-oc
closed
1 year ago
4
Q about hm3 variants
#395
gunns2
closed
1 year ago
4
snp_grid_PRS output all missing values
#394
xcliu-oc
closed
1 year ago
4
snp_asGeneticPos step || I download the dataset, but it doesn't work in local computer?
#393
fenfenge
closed
1 year ago
6
Implement matrix accessors for bed objects
#392
privefl
closed
1 year ago
0
Implement bed_(c)prodMat()
#391
privefl
opened
1 year ago
1
Comparison of bigsnpr versions 1.11.4 and 1.10.8
#390
nathangillespie
closed
1 year ago
9
L-BFGS-B error
#389
Sabor117
closed
1 year ago
29
Imputed data with HapMap3+ reference data
#388
Janina24
closed
1 year ago
7
"long vectors not supported yet" issue when using snp_ldsplit
#387
cz354
closed
1 year ago
5
snp_fastImpute xgboost error
#386
sounkou-bioinfo
closed
1 year ago
3
snp_readBGEN incompatible with rlang > v 1.0.0
#385
jebbd
closed
1 year ago
2
Error in .sparse2g(x) : negative length vectors are not allowed
#384
Mahantesh-Biradar
closed
1 year ago
10
Error in download_plink2(): arguments imply differing number of rows: 9, 8
#383
privefl
closed
1 year ago
0
See if can make snp_grid_clumping() faster
#382
privefl
opened
1 year ago
1
Interpreting output of `snp_grid_clumping`
#381
glm729
closed
1 year ago
5
missing half of SNPs after importing to bigsnpr
#380
xcliu-oc
closed
1 year ago
3
Negative h2 estimate with snp_ldsc and LDpred2 auto model selection
#379
xuyu-cam
closed
1 year ago
3
Restrict to HapMap3(+) variants / LD reference
#378
Smarzels
closed
1 year ago
8
Parallele error: object '.doSnowGlobals' not found
#377
YutingHan317
closed
1 year ago
2
Third parameter alpha in LDpred2-auto + inference
#376
privefl
closed
1 year ago
0
NULL value returned by function snp_ldsplit
#375
rmehta1987
closed
1 year ago
10
LDpred2-auto subset SNPs or genomewide fit?
#374
szhan1000
closed
1 year ago
3
Run LDSC inside R with snp_ldsc?
#373
Ararder
closed
1 year ago
3
Node error on HPC when creating LD matrix
#372
oalavijeh
closed
2 years ago
2
Running tutorial across multiple chunks
#371
oalavijeh
closed
1 year ago
14
Can 'delta' be 0?
#370
xcyang17
closed
1 year ago
4
Converting SE of OR to SE of beta
#369
oalavijeh
closed
2 years ago
4
define _FLIP_ and _REV_
#368
earosenthal
closed
1 year ago
3
effect allele for LDpred scores?
#367
gunns2
closed
2 years ago
2
How to add_code256 to data type other than 'raw' and 'unsigned char'?
#366
jianvhuang
closed
2 years ago
2
Only NAs in pred_auto
#365
Janina24
closed
1 year ago
2
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