zhengxwen SNPRelate issues

zhengxwen / SNPRelate

R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)

http://www.bioconductor.org/packages/SNPRelate

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issues

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doc: Update snpgdsFst.Rd

#109 Billsfriend closed 2 weeks ago
0
Error in .InitFile2

#108 Tom159357 opened 4 months ago
1
Error: There is no SNP!

#107 jane-edgeloe opened 6 months ago
0
agglomerative method in snpgdsHCluster

#106 botanicpanic1 opened 8 months ago
0
Function for matrix-vector multiplication

#105 JianqiaoWang opened 10 months ago
0
SNP weights

#104 Tannervanorden opened 10 months ago
0
Adding a new GDS node to my existing GDS file

#103 GabryS3 opened 10 months ago
0
snpgdsLDpruning gives an empty snp dataset

#102 GabryS3 opened 11 months ago
4
Exporting genotype matrix with snp.allele ids instead of 0,1,2 genotype codes from gds file

#101 jpfontenelle closed 1 year ago
2
Error during installation 3.13.2023

#100 bechee opened 1 year ago
0
A suggestion

#99 Glaucidium opened 1 year ago
1
Trouble converting GDS2BED

#98 clorenzo1 opened 1 year ago
0
Combining files

#97 cap76 closed 1 year ago
1
Error when converting vcf to gds

#96 AmanahLW opened 2 years ago
2
Error in snpgdsVCF2GDS......Genotype code is out of range

#95 gaochengPRC opened 2 years ago
0
SNPRelate does not check out on current R-Devel

#94 green-striped-gecko closed 2 years ago
3
SNPRelate for organelle genome (mitochondria or chloroplast)

#93 ucabuk opened 2 years ago
2
transfer bed into gds

#92 yywyaoyaowu closed 2 years ago
1
Working with genome that has more than 23 chromosomes?

#91 hsiaoyihung closed 2 years ago
2
snpgdsLDpruning for getting the number of independent markers for GWAS

#90 MuBulut opened 2 years ago
2
Sorry, this is a question...

#89 CholoTook closed 2 years ago
1
Update SNPRelate.Rmd

#88 CholoTook closed 2 years ago
0
Labeling on HapMap Phase II

#87 Asrix closed 3 years ago
2
PC-AIR issue when over 50k samples.

#86 jjfarrell opened 3 years ago
11
Combining GDS files

#85 bio-bench opened 3 years ago
0
snprelate genotype coding

#84 meixilin closed 3 years ago
0
Questions around snpgdsPCASNPLoading and snpgdsPCASampLoading

#83 sstadick closed 3 years ago
2
LAPACK::DSPEVX Error 4

#82 whitejaa closed 3 years ago
2
Method of handling missing data in snpgdsPCA

#81 andemexoax closed 3 years ago
2
Population Assignments for PCA plots

#80 carlahurt opened 3 years ago
1
typo fix: exacting -> extracting

#79 kdm9 closed 3 years ago
0
SNPRelate for parasite genome analysis

#78 vappiah opened 3 years ago
1
snpgdsCombineGeno makes new snp.id when combine multiple gds files

#77 yangli-ai opened 3 years ago
2
SNPRelate cannot find variant.id from SeqArray object

#76 yangli-ai opened 3 years ago
2
How can I modify the y axis (individual dissimilarity)

#75 Carol-Symbiomics opened 3 years ago
0
I was using vcfMissingness.pl to generate pairwise missingness matrices but after the process went through it says "Fatal error: cannot open file 'resources/missingnessHeatMaps.R': No such file or directory" even if the directory is there. Any input will be appreciated.

#74 mergi-2674 opened 3 years ago
0
snpgdsVCF2GDS not recognizing contigs

#73 cinnamon259 closed 3 years ago
2
Weighted Fst meaning

#72 NamLQ opened 4 years ago
0
snpgdsIBS: calculation method?

#71 kroluk closed 4 years ago
4
family information in snpgdsGDS2PED

#70 treebreeder opened 4 years ago
2
snpgdsLDpruning result to gds/vcf

#69 linsson opened 4 years ago
7
snpgdsSlidingWindow winstart= bug

#68 marqueda opened 4 years ago
3
varprop interpretation

#67 MaVdb closed 4 years ago
7
snpgdsLDpruning gives different number of filtered variants every time.

#66 VenithaB closed 4 years ago
1
traceXTX is NaN for fastPCA

#65 mchughc closed 4 years ago
3
PCA with different symbols (pch)

#64 mullerbsf closed 4 years ago
2
Ids in plink bed are not unique

#63 zillurbmb51 opened 5 years ago
2
offset for grm in snpgdsGRM(method="IndivBeta")

#62 jgx65 closed 5 years ago
4
killed 9 genomat <- snpgdsGetGeno(genofile, sample.id=NULL,snp.id=NULL) Genotype matrix: 10536236 SNPs X 2504 samples Killed: 9

#61 xinghuq closed 5 years ago
1
Samples names for IBS results

#60 NandiniBN closed 5 years ago
1