Comments (11)
There is a script https://github.com/ruanjue/wtdbg2/blob/master/scripts/wtdbg-dot2gfa.pl, it can translate dot files into GFA format.
from wtdbg2.
Yes, the final assembly graph can be found in prefix
.ctg.dot.
from wtdbg2.
Ah, so it's not currently possible to convert the final assembly to GFA format?
from wtdbg2.
Wtdbg2 outputs intermediate graphs in dot. No final graph like canu/falcon/miniasm, though.
from wtdbg2.
Consider it a feature request then?
from wtdbg2.
Excellent! Could wtdbg2 output a final assembly graph in GraphViz format?
from wtdbg2.
Excellent! Thanks, Jue!
from wtdbg2.
There is a script https://github.com/ruanjue/wtdbg2/blob/master/scripts/wtdbg-dot2gfa.pl, it can translate dot files into GFA format.
Please note that this script expects the prefix.[123].dot
files as input.
I tried it with the prefix.ctg.dot
to no avail, hence, dot -Tps prefix.ctg.dot -o prefix.ctg.ps
should do the trick.
from wtdbg2.
300f189
GFA for prefix.frg/ctg.dot.
from wtdbg2.
Great! Thanks!
from wtdbg2.
Thanks a lot!
from wtdbg2.
Related Issues (20)
- wtdbg2对杂合度以及重复序列敏感度的问题 HOT 1
- Parameters for assembling short sequences (generating small assemblies) HOT 2
- I dont find wtpoa-cns script
- Enquiry about the parameter "-m" HOT 3
- Wtdbg2: Parameter -g setting problem HOT 2
- Runtime Issue with warnings HOT 5
- wtpoa-cns polishing details HOT 9
- Different contig numbers and contig length generated! HOT 1
- Died at /home/synbiolab/SoftWares/wtdbg2/wtdbg2.pl line 25. HOT 2
- No such file: assembly.events HOT 4
- No Consensus ctg.fa file created HOT 5
- Ambiguous bases HOT 1
- adjustable parameters with --load-alignments HOT 3
- Only one sample or multiple samples can be used in wtdbg2? HOT 1
- C++/ Python library HOT 1
- ".cns.fa" output HOT 1
- contigN50 too small HOT 13
- CCS data assemble far too small HOT 4
- Recomendation for AT-high and very repetitive genome
- the estimate of running time HOT 1
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 wtdbg2.