bvilhjal/ldpred

Issues

• HapMap3 as LD reference

  #163 opened 10 months ago by lizlitkowski
  0

• KeyError: '1' - Score method

  #137 opened 2 years ago by souzadevinicius
  1

• Question: Infinitesimal model x P = 1

  #142 opened 2 years ago by souzadevinicius
  0

• LD_RADIUS

  #153 opened 4 years ago by marine11
  1

• keyError: 'raw_snps'

  #151 opened 4 years ago by jielab
  9

• IndexError: pop from empty list

  #136 opened 5 years ago by chokriNao
  3

• fraction selection

  #162 opened 3 years ago by bnj50
  0

• LD reference panel and target genotype

  #157 opened 4 years ago by Qiaolan
  1

• LDpred installation problems

  #160 opened 4 years ago by mdahmad
  0

• Error: LD reference does not seem to match the coordinated SNP data

  #159 opened 4 years ago by danjweiner
  0

• The posterior mean is not a real number?

  #125 opened 5 years ago by BeatrizCortes
  8

• KeyError: "Unable to open object (object 'cord_data' doesn't exist)"

  #146 opened 4 years ago by bbitarello
  3

• SNPs retained after filtering

  #158 opened 4 years ago by bbitarello
  0

• Diseased samples got lower PRS than healthy samples

  #120 opened 5 years ago by Qinqiword
  4

• Inverse Correlation between PRS and phenotype

  #154 opened 4 years ago by gat2010
  1

• KeyError in ldpred fast

  #135 opened 5 years ago by gulumk
  2

• effalt in the summary statistics

  #156 opened 4 years ago by jystatistics
  0

• Standardized genotype data in Step 3 (ldpred score)

  #155 opened 4 years ago by ChongWu-Biostat
  0

• issue with plink and score function

  #105 opened 5 years ago by ishanparanjpe
  2

• Unable to find Phenotype values - 1.0.11

  #152 opened 4 years ago by gat2010
  0

• Possible defect when disabling MAF, version 1.0.11

  #145 opened 4 years ago by erez-odna
  2

• Unable to open object (object 'ns' doesn't exist) error in ldpred gibbs

  #143 opened 5 years ago by annashcherbina
  2

• AssertionError in gibbs sampling step

  #150 opened 4 years ago by PradoVarathan
  0

• KeyError: 'CT'

  #147 opened 4 years ago by marine11
  1

• Running LDpred without running setup.py

  #148 opened 4 years ago by choishingwan
  4

• Can LDpred run for each chromosome now?

  #129 opened 5 years ago by ChongWu-Biostat
  3

• KeyError during coord genotypes

  #131 opened 5 years ago by pgormley
  8

• Bug report for computing z scores from p-values

  #144 opened 4 years ago by mxcai
  1

• Diseased samples got lower PRS than healthy samples

  #139 opened 5 years ago by gyni
  4

• Explicit output definitions

  #141 opened 5 years ago by shoagun
  0

• Potential bug in plinkfiles.py

  #140 opened 5 years ago by stormliucong
  0

• Basic question regarding how to run

  #138 opened 5 years ago by Sabor117
  0

• what does effalt in STANDARD really refers to?

  #133 opened 5 years ago by mathieu-lemire
  1

• Update ldpred docker image

  #134 opened 5 years ago by hyjkim
  0

• Write all output in a log file by default

  #132 opened 5 years ago by bvilhjal
  0

• Best correlation score

  #124 opened 5 years ago by giuliapontali
  4

• Question about Output files

  #130 opened 5 years ago by hrafnfaedhir
  0

• Support plink file parsing using pandas-plink

  #127 opened 5 years ago by bvilhjal
  0

• Support parsing of bgen files

  #128 opened 5 years ago by bvilhjal
  0

• EOFError: Ran out of input

  #123 opened 5 years ago by KClaudio21
  1

• get_ld_dict does not pass use_hickle into _serialize_ld_info_

  #121 opened 5 years ago by hyjkim
  0

• TypeError: float argument required, not numpy.ndarray

  #107 opened 5 years ago by Qinqiword
  2

• Questions about the logs: 'Current PRS correlation', 'The slope for predictions with weighted effects' etc.

  #113 opened 5 years ago by YiweiNiu
  1

• Installing using "pip install" omits LDpred.py

  #112 opened 5 years ago by AlexandreHutton
  1

• got an error message with finding chromosomes in ldpred

  #104 opened 5 years ago by mindy1315
  2

• Can you add the BASIC format

  #106 opened 5 years ago by gmgaous
  2

• hapmap 3 reference information

  #102 opened 5 years ago by agnetelundgaard
  2

• ldpred score error 2

  #101 opened 5 years ago by nandobonf
  1

• How to cite the software?

  #103 opened 5 years ago by lassefolkersen
  1

• My GWAS hits are too significant for LDpred

  #108 opened 5 years ago by lassefolkersen
  2