Issues

• Error about missing tmp file

  jonathonthill/MMAPPR2#105 · Filter by author CCprinc opened on Mar 15, 2023

• How to run loess when there are large gaps in a chromosome?

  jonathonthill/MMAPPR2#104 · Filter by author xiekunwhy opened on Jul 20, 2020
  3

• Take out Rsamtools dependency

  complexity-lowpriority-medium
  jonathonthill/MMAPPR2#103 · Filter by author kjohnsen opened on Jul 30, 2019

• Put plots in vignette

  complexity-lowpriority-medium
  jonathonthill/MMAPPR2#102 · Filter by author kjohnsen opened on Jul 30, 2019

• Output data on failure

  complexity-lowpriority-low
  jonathonthill/MMAPPR2#97 · Filter by author kjohnsen opened on Mar 18, 2019

• Remove compulsory progress bar

  complexity-lowpriority-medium
  jonathonthill/MMAPPR2#93 · Filter by author kjohnsen opened on Oct 17, 2018

• Make package Windows-compatible

  complexity-mediumenhancementpriority-mediumrefactor
  jonathonthill/MMAPPR2#92 · Filter by author kjohnsen opened on Oct 16, 2018

• Make outputMmapprData examples runnable

  bugcomplexity-mediumpriority-medium
  jonathonthill/MMAPPR2#90 · Filter by author kjohnsen opened on Oct 5, 2018

• Make plots flexible

  complexity-mediumenhancementpriority-lowrefactor
  jonathonthill/MMAPPR2#89 · Filter by author kjohnsen opened on Oct 4, 2018

• Don't get all sorts of chromosomes when peak isn't found

  complexity-mediumpriority-medium
  jonathonthill/MMAPPR2#88 · Filter by author kjohnsen opened on Sep 6, 2018

• Make manuals and vignette code executable

  complexity-mediumpriority-high
  jonathonthill/MMAPPR2#84 · Filter by author kjohnsen opened on Aug 29, 2018 · Bioconductor Submission

• Update CITATION after paper is published

  complexity-lowpriority-medium
  jonathonthill/MMAPPR2#82 · Filter by author kjohnsen opened on Aug 29, 2018

• Fix negative peak coordinates

  complexity-lowpriority-high
  jonathonthill/MMAPPR2#78 · Filter by author kjohnsen opened on Aug 28, 2018 · Bioconductor Submission

• Parallelize peak resampling

  complexity-mediumenhancementpriority-mediumrefactor
  jonathonthill/MMAPPR2#76 · Filter by author kjohnsen opened on Aug 26, 2018

• Implement VCF output file

  complexity-mediumenhancementpriority-lowrefactor
  jonathonthill/MMAPPR2#64 · Filter by author kjohnsen opened on Aug 6, 2018

• Create Dockerfile/Docker image for easier install

  complexity-lowenhancementpriority-low
  jonathonthill/MMAPPR2#63 · Filter by author kjohnsen opened on Aug 5, 2018

• Filter variants for homozygotes before running VEP

  complexity-lowpriority-medium
  jonathonthill/MMAPPR2#57 · Filter by author kjohnsen opened on Jul 25, 2018

• Eliminate need to install VEP by using web API

  complexity-highenhancementpriority-medium
  jonathonthill/MMAPPR2#47 · Filter by author kjohnsen opened on Jun 29, 2018

• Output gene name instead of ID from VEP

  complexity-mediumenhancementpriority-low
  jonathonthill/MMAPPR2#46 · Filter by author kjohnsen opened on Jun 29, 2018

• Make Windows compatible

  complexity-highpriority-low
  jonathonthill/MMAPPR2#45 · Filter by author kjohnsen opened on Jun 29, 2018

• Replace data.frame with data.table

  complexity-highenhancementpriority-low
  jonathonthill/MMAPPR2#44 · Filter by author kjohnsen opened on Jun 29, 2018

• Handle alignment and pre-processing purely within R

  complexity-highenhancementpriority-medium
  jonathonthill/MMAPPR2#42 · Filter by author kjohnsen opened on Jun 29, 2018

• Default parameter optimization

  complexity-highenhancementpriority-low
  jonathonthill/MMAPPR2#41 · Filter by author kjohnsen opened on Jun 29, 2018

• Make secondary candidate list of loci with reduced expression

  complexity-highenhancementpriority-medium
  jonathonthill/MMAPPR2#40 · Filter by author kjohnsen opened on Jun 29, 2018

• Improve validity checking functions

  enhancementpriority-low
  jonathonthill/MMAPPR2#39 · Filter by author kjohnsen opened on Jun 29, 2018