chr1swallace/coloc

Issues

• Why is the PP.H4.abf result of res$summary different from the maximum PP.H4 in res$results?

  #161 opened 8 months ago by dqq0404
  5

• error for coloc input datacheck

  #166 opened 6 months ago by forevertl
  2

• Question about Constant Values in r.df2 Column of Coloc Output

  #172 opened 2 months ago by Xenophong
  8

• whether COLOC analysis require CHR and BP information

  #173 opened 2 months ago by tss0222
  1

• runsusie() error with convergence

  #163 opened 3 months ago by jvalliere
  1

• Add check for for variant naming consistency

  #170 opened 4 months ago by oborisov
  0

• Consider adding reference to SuSiE sumstats paper

  #169 opened 5 months ago by jeffreypullin
  0

• coloc.abf error

  #141 opened a year ago by maguileraf
  4

• Question about Using `Effective Sample Size` vs `Observed Sample Size` for Coloc Analysis

  #165 opened 6 months ago by laleoarrow
  0

• GWAS-GWAS colocalisation

  #123 opened a year ago by Liuyh275
  6

• The minimum number of specific gene eQTLs included in the COLOC analysis?

  #162 opened 7 months ago by lttlttlttH
  0

• coloc.abf and check_dataset returen "missing value where TRUE/FALSE needed"

  #159 opened 8 months ago by huntPis
  1

• runsusie and susieR results differ

  #142 opened a year ago by maguileraf
  8

• Error in coloc.susie ()

  #160 opened 8 months ago by Huiflorazhan
  2

• coloc.susie returns NA results without error message

  #147 opened 8 months ago by zhilizheng
  3

• NULL Result from coloc.susie

  #158 opened 8 months ago by htqqdd
  0

• Is the distribution of effect size estimates specifically and strictly required to follow Normal Distribution?

  #157 opened 8 months ago by EthanZhaoChem
  0

• How are representative hits chosen in results summary table?

  #156 opened 8 months ago by dtaylo95
  0

• How to interpret the results of susie summary？

  #151 opened 8 months ago by Leweibo
  3

• The pre-process of QTL-GWAS colocalisation

  #150 opened 8 months ago by ttongyyang
  3

• LD matrix on SuSIE_coloc

  #132 opened a year ago by Zhangzzzzzy
  7

• "cc" and "quant" variables effect size

  #149 opened 8 months ago by ariadnacilleros
  2

• Add quiet=FALSE to coloc.abf()

  #148 opened 9 months ago by oborisov
  0

• [Question] Calculating coloc.abf PP.H4.abf

  #146 opened 10 months ago by ctat41
  0

• Error when running `check_dataset()`

  #145 opened 10 months ago by martaalcalde
  3

• Error if beta and/or varbeta contain `Inf`

  #133 opened a year ago by oborisov
  5

• Error when running check_dataset

  #135 opened a year ago by adoostparast
  1

• Error when running COLOC

  #117 opened 2 years ago by smsinks
  2

• Setting per-SNP priors to maintain per-hypothesis priors when number of SNPs is large?

  #140 opened a year ago by porchard
  0

• Warning messages:1: In adjust_prior(p1, nrow(df1), "1") : p1 * nsnps >= 1, setting p1=1/(nsnps + 1)；2: In adjust_prior(p2, nrow(df2), "2") : p2 * nsnps >= 1, setting p2=1/(nsnps + 1)

  #139 opened a year ago by Seanm818
  0

• Summary stats of two traits are from the same dataset

  #137 opened a year ago by Sheeya-Dong
  6

• XtX is not symmetric

  #136 opened a year ago by mocksu
  1

• description errors

  #138 opened a year ago by mocksu
  0

• coloc.abf

  #131 opened a year ago by MoMaz123
  1

• Question on "First: select the SNPs to study."

  #130 opened a year ago by anbai106
  0

• How to determine N for runsusie (each SNP with different N value)

  #129 opened a year ago by shannjiang
  0

• length of snp vector should be 1 less than ncol(res$lbf_variable)

  #127 opened a year ago by shannjiang
  6

• error in check_dataset: duplicated SNPs

  #128 opened a year ago by PyunJung-Min
  4

• runsusie error report: Error in (function (z, R, n, bhat, shat, var_y, z_ld_weight = 0, estimate_residual_variance = FALSE, : The dimension of R (0 x 0) does not agree with expected (500 x 500)

  #126 opened a year ago by phyliciasy
  2

• object 'LD' not found in installation (build_vignettes=TRUE)

  #125 opened a year ago by bbb801
  4

• Query about eQTL summary selection for coloc analysis

  #124 opened a year ago by TaoShiyue
  0

• Summary from coloc.susie is missing pairwise comparisons between credible sets?

  #122 opened 2 years ago by char4816
  0

• coloc.susie detected high PP.H4.abf but the result does not make sense

  #121 opened 2 years ago by catheriz
  0

• coloc error: Error in lm.fit(x, y, offset = offset, singular.ok = singular.ok, ...) :NA/NaN/Inf in 'x'

  #120 opened 2 years ago by forevertl
  0

• Sample size (N or n) not recognised by coloc.susie

  #119 opened 2 years ago by ChrisShore
  1

• prepare the data structure for coloc.abf and loop for multiple variants running together

  #118 opened 2 years ago by manL23
  0

• Questions about the coloc hypotheses

  #116 opened 2 years ago by mocksu
  0

• How to construct a dataset for coloc analysis?

  #115 opened 2 years ago by mocksu
  6

• Colocalization of eQTL and GWAS

  #114 opened 2 years ago by cy6n
  5

• Using coloc for conditionally independent eQTLs in the HLA region

  #113 opened 2 years ago by joycekang
  3