standard-RAxML

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Use "SIMD Everywhere" to enable wider portability

1

Hello. This is another patch from Debian that enables building of RAxML on non-x86 systems. I'll soon send a patch for RAxML-NG as well. Please let me know if you...

mr-c

Adding branch length and bootstraps to a consensus tree

3

I was able to build a 100 trees with branch lengths using tutorial available. But when when I run the command to build a consensus tree to get the bootstrap...

npbhavya

Change exit code for error thrown when input tree is not rooted in ancestral state computation mode. Fixes #56

jtklein

Multithread and Resume - Reg.

1

Hi, I installed Raxml v8.2.12 through conda. I have two questions. 1. I am constructing phylogenetic tree with whole genomes (~170 kb) with the following command: raxmlHPC -m GTRGAMMA -p...

bioramg

Custom tree roots

1

I want to customize the root of the tree in the analysis. How do i achieve this？

lipeng-j

Estimate branch length with a fixed tree

1

Hi Alexis, I have a data matrix and a phylogenetic tree (I manually changed the topology of a tree obtained from RAxML). It is a Newick tree without branch length....

lychen83

This is just a petty suitor to a wonderful program, but it is misleading. The accuracy of storing a real number of the double type is 14-15 decimal digits, so...

boristim66

Misleading output in RAxML_info w/ options -f e -m GTRCAT

3

In typical runs with GTRCAT model, the final ML optmisation switches to GTRGAMMA. When using `-f e` (estimate model & branch lengths on topology given by `-t`), the output reads...

tamuri

Dear Alexis, Good Morning! I used raxmlHPC command for my alignment and it took me more than a month to align my 1.4 Mb genomic sequences of 779 isolates. So,...

krishna1925