meyer-lab-cshl plinkQC issues

meyer-lab-cshl / plinkQC

R package for quality control of plink genetic datasets

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issues

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Issue with PCA for chromosome X

#55 Eyael-H opened 2 weeks ago
0
Issue with data pruning for ancestry estimation

#54 safamajeed opened 8 months ago
0
possible issue with high-LD-regions-hg38-GRCh38.bed data

#53 straubp-vandy opened 11 months ago
0
Negative chromosome X heterozygosities

#52 fastforward35 opened 12 months ago
1
Negative Chr X heterozygosities

#51 fastforward35 opened 12 months ago
0
Updates for Ancestry Estimation Vignette

#50 carolinewalter5 opened 1 year ago
0
1000 Genomes phase 3 links have changed

#49 mxhm opened 2 years ago
0
Error using the evaluate_check_ancestry function

#48 boseb opened 2 years ago
1
Some questions about ancestry estimation

#47 jordur opened 2 years ago
0
Cannot find sample in the prefix merged dataset

#46 rskl92 closed 2 years ago
1
mkdir flag

#45 eg-r closed 2 years ago
0
Dev

#44 HannahVMeyer closed 3 years ago
0
check_snp_missingness error

#43 nickorr78 closed 3 years ago
3
check_relatedness ignores genomebuild

#42 fechva closed 3 years ago
2
plinkQC a single sample

#41 jielab closed 3 years ago
3
Update dplyr verb syntax avoiding global variable issues

#40 HannahVMeyer closed 3 years ago
0
Update github to 0.3.3

#39 HannahVMeyer closed 3 years ago
0
Ancestry Check outlier mapping

#38 pwuUCL closed 3 years ago
5
Error in evaluate_ancestry_check samples that cannot be found

#37 brkicd closed 3 years ago
6
Zooming in on PCA graph?

#36 MichaelCummingsBCH closed 4 years ago
0
plot was not created

#35 montenegrina closed 3 years ago
2
Build version

#34 montenegrina closed 3 years ago
2
markerQC

#33 umasaxena closed 3 years ago
2
Dev

#32 HannahVMeyer closed 4 years ago
0
name.fail-IBD.IDs not found

#31 wiedenhoeft closed 4 years ago
6
check_sex fails if no gender mismatch is found in the data

#30 pasiunaite closed 4 years ago
2
Dev

#29 HannahVMeyer closed 4 years ago
0
Unknown error using the evaluate_check_ancestry function

#28 MichaelCummingsBCH closed 4 years ago
33
X chromosome QC

#27 rskl92 closed 4 years ago
10
ERROR WHILE RUNNING PLINKQC IN RSTUDIO ON WINDOWS

#26 hkiran22 closed 4 years ago
4
Shifted PCA plots with respect to reference sample

#25 HannahVMeyer closed 4 years ago
37
A<->T and C<->G lead to shift population shifts in ancestry qc

#24 HannahVMeyer closed 4 years ago
2
Relatedness checks

#23 rskl92 closed 4 years ago
15
Dev

#22 HannahVMeyer closed 4 years ago
1
Log issue occurs when running the function perMarkerQC and overviewPerMarkerQC

#21 fanwayne closed 4 years ago
5
Alleles swapped in cleanData

#20 evagradovich closed 4 years ago
2
Dev

#19 HannahVMeyer closed 5 years ago
0
Dev

#18 HannahVMeyer closed 5 years ago
0
Dev

#17 HannahVMeyer closed 5 years ago
0
Error when running overviewPerIndividualQC function

#16 dietmarfdz closed 5 years ago
4
Exit error in relatedness check

#15 evagradovich closed 5 years ago
2
evaluate_check_ancestry fails with numeric IDs

#14 Rodin67 closed 5 years ago
2
Dev

#13 HannahVMeyer closed 5 years ago
0
Dev

#12 HannahVMeyer closed 5 years ago
0
Possible Bug relatednessFilter

#11 GabrieleNocchi closed 5 years ago
24
Error when following Genomes1000.Rmd commands

#10 dpcc2 closed 5 years ago
2
macTh and mafTh in perMarkerQC

#9 blueskypie closed 5 years ago
3
error from perMarkerQC

#8 blueskypie closed 5 years ago
4
error from overviewPerIndividualQC

#7 blueskypie closed 5 years ago
1
error from overviewPerIndividualQC

#6 blueskypie closed 5 years ago
2