v1.4.11

MendelIHT v1.4.11

Diff since v1.4.10

v1.4.10

MendelIHT v1.4.10

Diff since v1.4.9

Merged pull requests:

• CompatHelper: add new compat entry for DelimitedFiles at version 1, (keep existing compat) (#55) (@github-actions[bot])

v1.4.9

MendelIHT v1.4.9

Diff since v1.4.8

Merged pull requests:

• CompatHelper: bump compat for StatsBase to 0.34, (keep existing compat) (#54) (@github-actions[bot])

v1.4.8

MendelIHT v1.4.8

Diff since v1.4.7

Merged pull requests:

• CompatHelper: add new compat entry for BGEN at version 0.1, (keep existing compat) (#49) (@github-actions[bot])
• CompatHelper: add new compat entry for CSV at version 0.10, (keep existing compat) (#50) (@github-actions[bot])
• CompatHelper: add new compat entry for VCFTools at version 0.2, (keep existing compat) (#51) (@github-actions[bot])

v1.4.7

MendelIHT v1.4.7

Diff since v1.4.6

Closed issues:

• Use SnpLinAlg for sparse models as well (#46)

Merged pull requests:

• Memory efficient keyword (#47) (@biona001)

v1.4.6

MendelIHT v1.4.6

This is the last update before resubmitting our manuscript. The main changes are:

1. fix bug: init_beta not initializing intercept correctly
2. Updated documentation, adding more docstrings and discussion on memory requirement
3. Add lower bound to SnpArrays, which ensures that multithreading with SnpLinAlg is always using Base.Threads
4. Add scripts and output files for new analysis in our paper

Diff since v1.4.5

v1.4.5

MendelIHT v1.4.5

This is a minor release with no breaking changes.

• Ensures fresh installation of MendelIHT will install the latest SnpArrays.jl (i.e. v0.3.14)
• save SNP pos/chr/id/ref/alt in output beta file
• remove tmp files generated when using MendelIHT

Diff since v1.4.4

Merged pull requests:

• CompatHelper: bump compat for SpecialFunctions to 2, (keep existing compat) (#45) (@github-actions[bot])

v1.4.4

MendelIHT v1.4.4

• Add progress bar for initializing beta
• Shift most compilation time to precompilation time. This means that using MendelIHT takes a long time (>2 min) but afterwards calling iht() or cross_validate() will be much faster.
• Output beta files now additional outputs the SNP name
• Remove warnings

Diff since v1.4.3

v1.4.3

MendelIHT v1.4.3

Diff since v1.4.2

v1.4.2

MendelIHT v1.4.2

Diff since v1.4.0

Closed issues:

• parallel computing in cv_iht is slow for floating point matrices. (#8)
• Do not perform selection on non-genetic covariates (#37)

Merged pull requests:

• Multithread instead of pmap (#35) (@biona001)
• compat upate (#38) (@kose-y)
• Project covariates (#39) (@biona001)