Comments (6)
add quality filter options
from panaroo.
how does this occur again?
from panaroo.
Bad input data mostly
from panaroo.
Is this still a problem @nzmacalasdair ?
from panaroo.
With the data QC at the start, and our reduced core_alignment threshold of 0.95, I think it's extremely unlikely that this would be a problem.
I think our proposed explicit solution was to print a warning when it happens. I could add that?
from panaroo.
Maybe we can come back to this if someone runs into it again?
from panaroo.
Related Issues (20)
- Question regarding alignment output and -a pan HOT 5
- Uncollapsed gene families HOT 1
- Conda build outdated (Bio.Alphabet issue) HOT 3
- family threshold parameter and different proteins HOT 2
- Bio.Alphabet module has been removed from Biopython error HOT 3
- GFF3 from GenBank HOT 1
- Genes present in prokka gff files but present as group_xxx in gene_presence_absence_file HOT 2
- Errno2 No such file or directory: '##gff-version' HOT 2
- unconnected nodes HOT 2
- Incomplete Panaroo output HOT 1
- Problem processing non-NCBI generated GBK files HOT 4
- Wrong information in the gene_presence_absence.Rtab file HOT 2
- Problems with multithreading HOT 3
- Not recognising gff files
- Issue installing panaroo on Mac M1 with Ventura HOT 10
- What do the tildes (~) mean in the gene name column from the gene_presence_absence.csv output file? HOT 1
- Error while generating gffs from panaroo output HOT 4
- Warning or error? HOT 2
- cd-hit error HOT 3
- Add a descriptive error message when you have 0 core genes
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 panaroo.