All the placement on half of the tree

[yueyujiang]

Hi, we are trying to use RAPPAS on a tree with around 64K leaves. Attached are the backbone tree, backbone sequences, and query sequences. We used the same commands as the ones on the README and use raxml-ng to build the database. The resulting placements for all the queries are on the same half of the tree which is not correct. Could you give us some help on that? Thanks!
rappas_data_001.zip

[blinard-BIOINFO]

@yueyujiang Hi, thank you for this, I'm looking at it today.

But I cannot find the commands that you mention, there is no README in the ZIP.

[yueyujiang]

Sorry for the confusion. We meant the command on the README of RAPPAS's github. Here is the command we used:

1. rappas -b ~/miniconda3/bin/raxml-ng -s nucl -w rappas_output/ -r backbone_seq -t backbone_tree -p b --use_unrooted
2. rappas -p p -d rappas_output/DB_session_k8_o1.5.union -q query_seq

Thanks!!