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Parameters to root and generate time caliberated phylogenies for dataset with weak temporal signals

Status: Open.

#600 In neherlab/treetime;

· Rohit-Satyam opened on Apr 22, 2026

Question regarding obtaining 95% HPD values from TreeTime results

Status: Open.

#463 In neherlab/treetime;

· lanlan0210 opened on Mar 11, 2026

Inquiry on TreeTime Application for a Large-Scale Phylogenetic Tree

Status: Open.

#343 In neherlab/treetime;

· liamxg opened on Jan 26, 2026

Unexpected Ancestral Mutations Inferred at Positions with Ambiguous or Conserved Bases

Status: Open.

#325 In neherlab/treetime;

· Hiruni-Wijewardena opened on May 29, 2025

Question regarding SNP alignment input

Status: Open.

#316 In neherlab/treetime;

· mstagliamonte opened on Apr 30, 2025

calibration with Fossil sample

Status: Open.

#314 In neherlab/treetime;

· kazumaxneo opened on Apr 28, 2025

Stochastic resolution is better than greedy?

Status: Open.

#313 In neherlab/treetime;

· liamxg opened on Apr 14, 2025

Urgent for Manuscript ! Plot issues tip labels are out of figure

Status: Open.

#311 In neherlab/treetime;

· nitinShukla1912 opened on Jan 26, 2025

Augur compatible output

rust

Status: Open.

#307 In neherlab/treetime;

· rneher opened on Dec 30, 2024

alignment input

rust

Status: Open.

#306 In neherlab/treetime;

· rneher opened on Dec 30, 2024

TreeTimeUnknownError: Unexpected behavior detected with y-values '[]' - When using augur refine

Status: Open.

#294 In neherlab/treetime;

· PepijnTeuling opened on Dec 10, 2024

ERROR: only integer scalar arrays can be converted to a scalar index

Status: Open.

#286 In neherlab/treetime;

· avantonder opened on Nov 21, 2024