bodkan/slendr

Issues

• problem with ts_eigenstrat

  #159 opened 3 months ago by Frasella
  4

• Problem installing tskit (during setup_env())

  #153 opened 9 months ago by gsilvaarias
  8

• Update tskit to v0.5.7

  #158 opened 6 months ago by bodkan
  0

• Correctly handle "truncated" models

  #113 opened 7 months ago by bodkan
  0

• Improve robustness of the "simulation finished" check in `slim()`

  #129 opened 8 months ago by bodkan
  5

• Consider a balance between R-like NA values and -1 values in slendr tables

  #115 opened 9 months ago by bodkan
  2

• Should slendr's internal `pylib.py` script be sourced into a dedicated environment?

  #151 opened 9 months ago by bodkan
  1

• slendr has trouble exporting conda paths

  #154 opened 9 months ago by janxkoci
  7

• no attribute 'get_pedigree_ids'

  #150 opened a year ago by willright28
  17

• Fix SLiM-presence test in `check_dependencies()`

  #152 opened 9 months ago by bodkan
  1

• Allow different mutation rate at different location on the demography ?

  #108 opened 10 months ago by Jilong-Jerome
  2

• Implement ancestry tract detection mechanism

  #105 opened 10 months ago by bodkan
  1

• Add SLiM's selfing rate function to slendR?

  #109 opened 10 months ago by ornobalam
  3

• Look into nicer reporting of errors after recent purrr changes

  #119 opened 10 months ago by bodkan
  0

• Figure out a way to run SLiM-based simulations on Windows

  #125 opened 10 months ago by jielab
  16

• A few assorted usage issues: installation, visualization, distance units

  #92 opened 10 months ago by ornobalam
  10

• fixes for SLiM 4.1 changes to SpatialMap

  #147 opened a year ago by bhaller
  9

• Locking population resizes with expansions/contractions interferes with determining the direction of time

  #143 opened a year ago by bodkan
  1

• A few questions regarding tspop integration into slendr

  #146 opened a year ago by bodkan
  9

• Puzzling differences of statistics computed from recapitated SLiM tree sequences compared to theory

  #141 opened 2 years ago by bodkan
  16

• Controlling mutation rate?

  #140 opened 2 years ago by ivanscotti
  1

• remove rgdal asap

  #139 opened 2 years ago by rsbivand
  3

• There's an issue with saving and/or loading a simplified tree sequence (carrying slendr metadata)

  #136 opened 2 years ago by bodkan
  1

• Add utility functions to print commands needed to run back-end scripts on the command-line

  #127 opened 2 years ago by bodkan
  0

• Add an option to automatically run simulation replicates (including parallel runs)

  #88 opened 2 years ago by bodkan
  3

• `plot_model()` does not adjust migration arrow ends when `log=TRUE`

  #131 opened 2 years ago by IsabelMarleen
  3

• Population names need to be valid python identifiers, but `population()` does not require this

  #133 opened 2 years ago by IsabelMarleen
  8

• Incorrect error messages in `gene_flow()` caused by time errors

  #132 opened 2 years ago by IsabelMarleen
  3

• Implement interface to genealogical nearest neighbors

  #128 opened 2 years ago by bodkan
  0

• A fundamental design question for Slendr

  #126 opened 2 years ago by jielab
  2

• slim binary not found

  #124 opened 2 years ago by jielab
  9

• library(slendr) throwing error after installing

  #110 opened 2 years ago by RishiDeKayne
  9

• Strange things are happening with custom CRS projections in some corners of the world

  #116 opened 2 years ago by bodkan
  10

• New error upon loading library

  #117 opened 2 years ago by hmoots
  4

• Could you allow non-uniform recombination rate in slendr?

  #96 opened 3 years ago by dangliu
  10

• Issues with replication of the explore_model() population history graph figure

  #111 opened 2 years ago by archgen
  2

• Add an option to add user-defined symbolic names to sampled individuals

  #114 opened 2 years ago by bodkan
  0

• Add option to skip serialization of slendr configuration files

  #97 opened 2 years ago by bodkan
  2

• Fix passing of node times from tskit through `ts_phylo`

  #107 opened 2 years ago by bodkan
  1

• Is geneflow restricted to overlapping region for populations with incomplete overlap?

  #103 opened 2 years ago by jahink17
  4

• Write the initial population size of a daughter population in a summary

  #106 opened 2 years ago by bodkan
  0

• Make sure slendr's SLiM back end can run both under SLiM 3 and SLiM 4

  #98 opened 2 years ago by bodkan
  3

• Not getting an output when running slim

  #101 opened 2 years ago by AhmedSelim1997
  7

• Admixture in slendr vs msprime

  #99 opened 2 years ago by archgen
  2

• Do you support a function to run simulation paralelly in cluster or using multiple cpus?

  #95 opened 3 years ago by dangliu
  2

• why do the number of simulated individuals differ between the same model run by SLiM and msprime?

  #94 opened 3 years ago by dangliu
  1

• Installation issue "error: ModuleNotFoundError: No module named 'tskit'"

  #93 opened 3 years ago by awohns
  11

• Can we handle "failed to generate child after 1 million attempts" a bit more gracefully?

  #90 opened 3 years ago by bodkan
  2

• How to interpret location coordinates

  #89 opened 3 years ago by percyfal
  6

• slim call throws conversion error

  #87 opened 3 years ago by percyfal
  5