STRique

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VBZ fast5 results in failure to read fast5

2

Newer versions of MinKNOW now compress fast5 files with VBZ compression which causes `strique.py count` to fail. Nanopore have provided an updated hd5 plugin to handle VBZ, however I'm struggling...

mattdmem

RuntimeError: dictionary keys changed during iteration

1

Hi, there, We recently upgraded to STRique 0.4.2; but when we tried to run the program, we had the following weird error: 03.01.2022 14:00:58 [PID 46032] [WARNING] Factory: Unexpected error...

woodoo46

STRique model version R10.3

3

I found in an earlier issue that R10.3 would not work with the current version of STRique: https://github.com/giesselmann/STRique/issues/6#issuecomment-600324010_ I have a couple of questions and would appreciate your feedback: -...

yufernando

Distinguish between AAAAT and GAAAT

2

Hello, We are using your tool to investigate a repeat expansion with the motif AAAAT. We assumed that there might be a mutation and it could also have the motif...

TheresaLueth

Dealing with concatemers

2

Hi, I've noticed with things like plasmid sequencing you sometimes get concatemers, when this happens STRique often predicts massive repeats which span multiple copies of the plasmid from the left...

mattdmem

repeat number 0

2

Hi, I am trying to quantify repeat number in a large insertion of unknown (potentially varying) size. The alignment is very poor because this insert is not in the reference....

gmoneyomics