Peter Heringer
Peter Heringer
This should be in the last line of the .tsv file generated in Step 4. Using the `-e`-Parameter you tell `panacus` to not count all the bps that intersect with...
It is just the first number, e.g. 1,086,959,399. The other numbers apply to the other coverages/quora respectively. So for example, if you would like to only take into account nodes...
Yes, it is possible. This could be done manually or by creating a list of all the paths one wants to keep and using [trim-graph](https://github.com/codialab/trim-graph) on it. This will remove...
Yes, there is definitely an issue there. I'm not sure about what exactly the problem is with the bed file. Can you maybe send me the first few lines of...
Thank you for the file. Okay, so the problem is that panacus cannot match the "chr1" in the first field of the bed file to any path in the graph....
Yes, this should be the correct approach. Best regards Peter
Happy new year to you too! I'm not 100% sure I understand the question completely, but let me try to explain the ordered growth. Panacus itself has no concept of...
Hi Taek, panacus should be able to exclude parts of the path depending on the coordinates. This seems to be some kind of issue. Can you send me what command...
Hi, thank you very much! I wasn't aware of quite how outdated the examples have become. I've updated panacus to have histgrowth as an alias for the growth command (as...
To get an impression on how good the compression might be without nesting, I tried removing rules from the set of rules that SQZ generates, so that only non-nested rules...