Comments (2)
Hi,
I'm also having the same issue, are there any news on the topic?
from blobtools.
Hi,
I added some additional information regarding read filtering.
First question, would you work on each library independently or together? I don't know if there's any conceptual difference.
I would assemble them together.
Then, I'd like to know if you could provide some commands to get a list of contigs ranked as superkingdom instead of phylum as is printed in blobDB.table.txt. Also, why the "kingdom" rank is not available? That would be really useful.
You can control the output of blobtools view
by specifying -r TAXRANK
. Or you can retrieve all taxonomic ranks by saying -r all
. I am sorry but 'kingdom' is currently not supported.
from blobtools.
Related Issues (20)
- AttributeError: 'ParsedRequirement' object has no attribute 'req'
- nodesdb not generated HOT 2
- ModuleNotFoundError: No module named 'docopt' HOT 2
- unmapped vs mapped in covplot HOT 6
- error in blobtools create
- Thanks to the developers for the program
- add an output options to the nodesdb tools HOT 3
- Tip: some jq code to get list of "good" contigs
- conda install has faulty blobtools plot
- docker build failing HOT 3
- Problems with BlobToolKit Viewer HOT 1
- Blobtools fail to calculate GC, coverage HOT 8
- DocoptExit ImportError: No module named docopt HOT 3
- Can this software now check the sequencing contamination of fungi and other Eukaryote?
- IndexError: list index out of range when parsing tax0. Blobtools normally works, not sure how to troubleshoot this error HOT 1
- megablast taxonomy assign
- Cannot download taxonomy data - permission denied
- TaxID mapping file_question
- Parsing Mapping file getting Killed HOT 1
- conda installation instructions don't work HOT 13
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from blobtools.