Marcel Martin
Marcel Martin
I’ve done some measurements of how much memory StrobeAlign uses depending on the reference size (by truncating a single reference to varying lengths). This is the resulting pattern:  There’s...
Before working on this, we need to determine whether an alternative is to speed up SAM writing, see #63.
See https://github.com/ksahlin/StrobeAlign/issues/58#issuecomment-1241552812
All the reads in the phiX test dataset happen to start with a single `N` base (an artifact of picking the first 100 reads from the run and not random...
I opened the tiny test dataset (with phiX) alignments in IGV (top in screenshot) and compared it to what BWA-MEM outputs (bottom). Many of the phiX reads are mapped with...
> I mainly want to ensure a good user interface. If a user says "only create an index" in some way, there should be an error if alignment options are...
`setup_requires` should only contain those dependencies that are required by the `setup.py` script itself. Since the `setup.py` script doesn’t actually import any of the dependencies in the `requires` list, `setup_requires`...
Reported by @ssyberg in #629 ``` seth@MacBook-Pro-2 ~ % pip install cutadapt Collecting cutadapt Using cached cutadapt-4.1.tar.gz (231 kB) Installing build dependencies ... done Getting requirements to build wheel ......
> Hi - I was excited to see this upgrade as we use cutadapt extensively - it works great and can do things no other software of its kind can...