Ecosyste.ms: Issues

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GitHub / dcgerard/updog issues and pull requests

#33 - How to Deal With The VCF File of AD

Issue - State: open - Opened by jiangzuo007 about 1 month ago

#32 - Fixes CRAN errors with updated version of Rcpp

Pull Request - State: closed - Opened by dcgerard 7 months ago

#31 - itemize to describe to pass CRAN checks

Pull Request - State: closed - Opened by dcgerard 8 months ago

#30 - Remove ggthemes dependency

Pull Request - State: closed - Opened by dcgerard 8 months ago

#29 - Remove aes_string() and Fix CI

Pull Request - State: closed - Opened by dcgerard 8 months ago

#28 - export_vcf function is not working

Issue - State: closed - Opened by huw143 9 months ago - 2 comments
Labels: enhancement

#27 - Specifying separate priors for each SNP in multidog

Issue - State: open - Opened by gtbil 10 months ago - 2 comments
Labels: enhancement

#26 - Remove ggplot2 dependency.

Issue - State: closed - Opened by dcgerard over 1 year ago
Labels: enhancement

#25 - Missing data for tetraploid multiparenting population

Issue - State: open - Opened by PaulaEB over 1 year ago - 3 comments
Labels: question

#24 - ERROR: "non-finite value supplied by optim"

Issue - State: closed - Opened by knagasaka over 1 year ago - 3 comments

#23 - Have updog return phred-scaled genotype likelihoods

Issue - State: open - Opened by YannDussert almost 2 years ago - 3 comments
Labels: enhancement

#22 - State which SNP provides warnings

Issue - State: open - Opened by dcgerard over 2 years ago
Labels: enhancement

#21 - Missing Parental Data

Issue - State: open - Opened by dcgerard over 2 years ago
Labels: enhancement

#20 - `multidog()` does not work with odd ploidy species when `model = "f1"`

Issue - State: closed - Opened by kostasgalexiou over 2 years ago - 2 comments
Labels: enhancement

#19 - Sequencing Error Rate Estimation in F1 Populations

Issue - State: closed - Opened by dcgerard almost 3 years ago - 6 comments

#18 - Is mupdog available for half-sib families?

Issue - State: open - Opened by LizPopowski over 3 years ago - 1 comment
Labels: question

#17 - Implemented a different version of the multidog parallel loop

Pull Request - State: open - Opened by alethere over 3 years ago - 1 comment

#16 - Error with parallel processing with multidog

Issue - State: open - Opened by stephenrkeller over 3 years ago - 4 comments
Labels: help wanted

#15 - Error in foreach loop of multidog - can't find "flexdog_full" function

Issue - State: closed - Opened by tpbilton over 3 years ago - 3 comments

#14 - How to get the VCF file

Issue - State: closed - Opened by yudizhangzyd over 3 years ago - 5 comments

#13 - Question about Model selection

Issue - State: closed - Opened by xuzhougeng over 3 years ago - 2 comments
Labels: question

#12 - Improvement of multidog

Issue - State: open - Opened by alethere over 3 years ago - 2 comments
Labels: enhancement

#11 - Add Vignette on Importing VCF Data

Issue - State: open - Opened by dcgerard over 4 years ago - 1 comment
Labels: enhancement

#10 - Provide in-house Filtering Functions

Issue - State: closed - Opened by dcgerard over 4 years ago - 1 comment
Labels: enhancement

#9 - Use drop = FALSE in color scale for plot.updog()

Issue - State: closed - Opened by dcgerard over 4 years ago - 1 comment

#8 - Add option to return either NA or the modal prior genotype for 0 read individuals

Issue - State: closed - Opened by dcgerard over 4 years ago - 1 comment
Labels: wontfix

#7 - Remove tidyverse from Suggests

Issue - State: closed - Opened by dcgerard over 4 years ago

#6 - Multi-SNP input for flexdog()

Issue - State: closed - Opened by dcgerard over 4 years ago
Labels: enhancement

#5 - Add `"custom"` option to `flexdog()`

Pull Request - State: closed - Opened by dcgerard almost 5 years ago

#4 - Change DBL_EPSILON to DOUBLE_EPS throughout

Issue - State: closed - Opened by dcgerard almost 6 years ago - 1 comment

#3 - Create snpname argument.

Issue - State: closed - Opened by dcgerard almost 6 years ago
Labels: enhancement

#2 - Option `model = "f1ppdr"` is very unstable.

Issue - State: closed - Opened by dcgerard almost 6 years ago - 1 comment

#1 - Not constraining s1pp to have same levels of preferential pairing.

Issue - State: closed - Opened by dcgerard almost 6 years ago - 1 comment