Manuel Lera-Ramirez

Add optional argument to parse to determine whether input is path or file content

5

Hello Bjorn, First of all, thanks for making pydna. I think it's a great library, and it is easy to follow the logic of functions and classes. I am using...

Inconsistent order of fragments after restriction

3

Hello, I noticed that when calling the function `cut()`, the order of the returned fragments depends on the order of the enzymes, and the behaviour is different for `Dseq` and...

See comments in the issue #78

Accessing children of a relationship

3

Is it possible to access the children of a relationship? For example, with the method `term.subclasses()` I can access all the inverse `is_a` relationships. Is there a way to access...

Term merge: GO:0052846 and GO:0101012

4

* **Term to be merged: GO:0101012:** inositol 1,5-bisdiphosphate 2,3,4,6-tetrakisphosphate 1-diphosphatase activity * **Which term do you propose this term merge into? GO:0052846:** inositol-1,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 1-diphosphatase activity * **Reason for merge**: I...

Please provide as much information as you can: * **Suggested term label:** L-phenylalanine import across plasma membrane * **Definition (free text)** The directed movement of L-phenylalanine from outside of a...

"Inositol pyrophosphatase activity" seems to be used as a synonym in these papers (see titles) [PMID:32303658](https://pubmed.ncbi.nlm.nih.gov/32303658/) (Fig. 3 depiction of the reaction) [PMID:35536002](https://pubmed.ncbi.nlm.nih.gov/35536002/)

Reading history

7

Hello, Really nice library, I was wondering if you could give some hint on how to decode the history of the files. I see that the byte indicator is number...

Inconsistent enzyme.search behaviour when cutting sequence falls outside sequence

8

### Setup I am reporting a problem with Biopython version, Python version, and operating system as follows: ```python import sys; print(sys.version) import platform; print(platform.python_implementation()); print(platform.platform()) import Bio; print(Bio.__version__) ``` ```...

Flipping origin-spanning locations with strand=None in circular molecules

5

### Setup I am reporting a problem with Biopython version, Python version, and operating system as follows: ```python import sys; print(sys.version) import platform; print(platform.python_implementation()); print(platform.platform()) import Bio; print(Bio.__version__) ``` ```...