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ts: Add a runMacsTs() version of runMacs()

Status: Open.

#21 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on May 4, 2026

ts: Ensure mutate() and genomeEdit() DNA changes are stored in tree sequence mutation table

Status: Open.

#19 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Apr 23, 2026

ts: Ensure we can work with multiple chromosomes / multipl-tree sequences?

Status: Open.

#18 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Mar 16, 2026

ts: Ensure tree seq recording works with OpenMP parallelisation

Status: Open.

#17 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Mar 15, 2026

ts: Write a white paper / implementation document for tree seq encoding and interaction with AlphaSimR

Status: Open.

#16 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Mar 1, 2026

ts: simulate infinitesimal additive trait on an ARG

Status: Open.

#15 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 28, 2026

ts: Saving AlphaSimR specific metadata and provenance information

Status: Open.

#13 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 28, 2026

ts: How will we encode node and individual IDs?

Status: Open.

#12 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 26, 2026

ts: Storing time/generation forward in time

Status: Open.

#11 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 26, 2026

ts: How will we handle tskit nucleotide/integer position vs. float position vs. AlphaSimR marker position?

Status: Open.

#10 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 26, 2026

ts: Add/use seqLength to properly work with tree sequences

Status: Open.

#9 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 26, 2026

ts: TreeSequence class (individual table) can hold parents - capture this information as well

Status: Open.

#8 In HighlanderLab/AlphaSimR;

· gregorgorjanc opened on Jan 10, 2026