chrchang/plink-ng

Issues

• `vcf_subset` utility --memory flag allocation bug

  #289 opened 3 days ago by kscott-1
  2

• Installing new version fails on linux system

  #287 opened 2 months ago by GabrielHoffman
  3

• Recommendations for Using pgenlib in a C++ Project

  #288 opened 13 days ago by r1cheu
  2

• Loading PVAR in pgenlibr

  #286 opened 2 months ago by GabrielHoffman
  1

• Two issues with IBS matrix calculation

  #285 opened 2 months ago by alexviiia
  3

• macOS: Impossible to open plink2

  #279 opened 4 months ago by Will-Tyler
  4

• 14 people had missing value(s),

  #281 opened 3 months ago by ryshi06
  1

• Importing plink pgen/pvar support from pgenlibr into other R packages at the the C++ level

  #283 opened 3 months ago by GabrielHoffman
  1

• edit run_tests.sh for plink2 vs plink

  #282 opened 3 months ago by ShashaankV
  1

• Error when convert IMPUTE5 BGEN to BFILE or VCF

  #280 opened 3 months ago by weichisyu
  7

• --r-unphased

  #277 opened 4 months ago by mysticwaterfalltree
  1

• Missing flags in the latest build.

  #278 opened 4 months ago by VectorFrankenstein
  1

• `--update-sex` does not assume FID to be 0 like `--keep`

  #276 opened 6 months ago by BinglanLi
  1

• `--keep` does not handle IID-only files properly when the main dataset contains FIDs

  #275 opened 6 months ago by dvg-p4
  3

• Error: Duplicate phenotype/covariate ID

  #273 opened 7 months ago by AnjeGrobler
  1

• PLINK 1.9: Issues with --make-bed and empty .fam file

  #274 opened 7 months ago by GGarrido013
  1

• clumping

  #271 opened 7 months ago by zkhamis
  0

• --homozyg-group question

  #270 opened 8 months ago by ocdorsey
  1

• pgenlibr: ReadList question

  #268 opened 8 months ago by gidiesse
  7

• Request for pgen files to include a version number in the header

  #258 opened a year ago by cmnbroad
  8

• Problem with combining different samples into a single plink 1 file for later input

  #269 opened 8 months ago by sbird1000
  1

• PLINK v1.9 `sprintf()` compilation warnings: Does a way to silence/fix them exist?

  #266 opened 8 months ago by VicBoss1984
  3

• Persistent download URLs for built binaries?

  #267 opened 8 months ago by espenhgn
  2

• how to install in arm64 ? thks

  #253 opened a year ago by zsw-test
  4

• Obtaining different results from the same data in different formats

  #265 opened 9 months ago by salcc
  2

• plink2 --update-name issue

  #264 opened 10 months ago by Yangyuqing0797
  1

• Logistic regression returns NAs output---FIRTH_CONVERGE_FAIL

  #263 opened 10 months ago by shenlan17
  1

• Compilation failure

  #255 opened a year ago by danieller
  1

• Pgenlib 0.90.1 is not installable from PyPI with Python 3.12.2 on Mac aarch64

  #260 opened a year ago by pettyalex
  1

• can plink handle vcf files with * notation?

  #259 opened a year ago by elizakirsch0
  1

• File read error when converting .vcf to PLINK .ped and .map file

  #257 opened a year ago by ryshi06
  1

• Can't run anny PLINK command on Ubuntu 22.04

  #256 opened a year ago by MatusBuci
  1

• Request: plink2 --extract/exclude-if-info [key(s)...]

  #254 opened a year ago by kscott-1
  1

• plink2 --sample-count running out of memory

  #250 opened a year ago by janxkoci
  5

• CentOs7.9 install plink1.9 error

  #252 opened a year ago by gaozejie
  3

• Feature Request: Upstream Dockerfile

  #251 opened a year ago by kscott-1
  0

• Multithread-only --glm floating point exception

  #245 opened a year ago by chrchang
  2

• pgenlibr: multi-threading?

  #249 opened a year ago by agilly-regn
  1

• --score precision error

  #248 opened a year ago by smlmbrt
  3

• 0 phenotype values present after --pheno.

  #247 opened a year ago by lukaskon
  1

• Overly general "--bcf file could not be scanned twice"

  #246 opened a year ago by chrchang
  0

• CNV-SNP LD

  #244 opened a year ago by Qijie0615
  2

• Python API import errors with latest version

  #243 opened a year ago by francois-a
  5

• Error: No entries in phenotype.txt correspond to loaded sample IDs.

  #242 opened 2 years ago by vishalsnegi
  1

• A question about --a1-allele

  #241 opened 2 years ago by shenlan17
  1

• Document mapping of chromosomes to numeric codes with --output-chr 26

  #240 opened 2 years ago by dvg-p4
  1

• --score with mean imputation calculates allele frequency for unneeded alleles

  #237 opened 2 years ago by dvg-p4
  3

• Correctness in Ref/Alt when converting to VCF

  #239 opened 2 years ago by weichisyu
  4

• Adding columns from VCF into plink result files

  #238 opened 2 years ago by pengxiao78
  1

• Plink2 round-tripping vcf->pgen->vcf does not preserve contig names

  #236 opened 2 years ago by cmnbroad
  3