-
### Setup
I am reporting a problem with Biopython 1.78, Python 3.7.7, and operating
system Ubuntu 18.04.5
I'm working on phylogenetic trees based on LTR appearance in Birds for my master thesi…
-
```r
clonal.tree.generation(
bcr_clusters = clus$merged_fasta,
index = 200,
raw_data = raw$merged_fasta,
python_path = "/opt/miniconda/envs/repair/bin/python"
)
```
```
use defau…
-
- Klaus Schliep (UMass Boston)
- https://CRAN.R-project.org/package=phangorn (GPL 2.0 or greater)
development version: https://github.com/KlausVigo/phangorn
- The R package phangorn contains met…
-
Dear all,
I encountered a bus error while running a Maximum Likelihood tree search with RAxML-NG on an Apple M1 Ultra system. The error occurred after the initial branch length optimization step. T…
-
Hi,
I am actually trying to run CloneFinder on a machine with Ubuntu(x64) and 32 Gb of ram. I installed every dependencies described in the Readme and the ones that are not in it, ete2 and scikit-l…
-
Algorithm is an abstract class from which ParsimonyAlgorithm, DistanceAlgorithm, LikelihoodAlgorithm, and OtherAlgorithm are derived. ParsimonyAlgorithm uses three other classes (GapMode, UserType, a…
ghost updated
7 years ago
-
My raw files were searched with DIA-NN 1.8.1 and the output table "report.pg_matrix.tsv" was used for further analysis. I was confused with the two columns "Protein.Group" and "Protein.Ids". The colu…
-
The nexsons include a property called `^ot:curatedType`. In the UI, this is called 'Inference method'. It is currently a pulldown that provides various inference options (Bayesian inference, Maximum L…
-
Software Bazaar: phangorn
**Authors:** Klaus Schliep, Emmanuel Paradis, Leonardo de Oliveira Martins, Alastair Potts, Tim W. White, Cyrill Stachniss, Michelle Kendall
**Source code:** [CRAN]( http…
-
The current results CSV header consists of:
name | n_taxa | n_trees | n_reticulations | msa_size | sampling_type | simulation_type | likelihood_type | timeout | n_random_start_networks | n_parsimon…