This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Question about Blast

why do I give a dog genome sequence and it gives me nothing about dogs?

blast

some more information might help to receive meaningful answers. If not, we're just as well random guessing

you're using the wrong database for instance?

BLAST can be run a lot of ways in a lot of places. Underlying BLAST in all its forms is the BLAST software. It needs several things to work and you can get an idea of what those are by working through these Jupyter Notebooks you can get in temporary, anonymous remote sessions right in your browser without logging in or anything by going here to my blast-binder repository and clicking 'launch binder'. badge you see there.
After the session spins up, (this may require some patience the first time depending where you are in the world right now, if it needs to build the image), you can work through the first three available notebooks, starting with the first one listed at the top. Indeed, these comments and that first Jupyter .ipynb file is likely the only one you need to work through to understand why lieven.sterck is pointing out that what you have provided doesn't help us help you. The intro stuff about the Jupyter UI may be a little outdated though so overlook that; importantly, I just tested the four Jupyter Notebooks and they run still (although you may need to try in a few different sessions as the MyBinder service can be taxed easily). You can just use the top menu to do 'Run' > 'Run All Cells' to run an entire notebook. After it works with the test stuff you may be able to even start to plug in some of your data. Although the limited computational resources offered by the Jupyter Community-supported MyBinder-service may not be enough for an entire metazoan genome. So you may want to play around with plugging in pieces and you may need additional resources you know of from the canine molecular biology domain to try and get something working.

0 answers

No answers yet.

Log in to answer this question.