Comments (4)
@nh13 Do you have a pointer to where the list lives by any chance?
from picard.
Well, found out two things.
- This is defined in htsjdk's ReferenceSequenceFileFactory.java, not Picard itself.
- The .fna extension is included in there, and accordingly, the latest version of Picard happily creates a dict file for a reference provided with .fna extension.
So it looks like there's nothing to do.
from picard.
Actually, funny thing -- while .fna (which is what was originally requested) is in there, .fsa is not, nor is .fas, which is another common one I remember from bygone days. We also don't include .seq, which is listed on the wikipedia page referred to in the original request.
So, how far we want to go to accommodate the wildtype fastas out there?
from picard.
No need to overgeneralize unless users want it.
from picard.
Related Issues (20)
- CollectAlignmentSummaryMetrics fails on some small inputs due to unsafe Histogram methods HOT 1
- Picard new release HOT 6
- SamToFastq HOT 5
- GENOTYPING_ERROR_RATE doesn't do anything in CrosscheckFingerprints HOT 3
- Sum of Which columns in MarkDulicates metrices gives us total reads? HOT 1
- Question about Depth HOT 1
- Sequence dictionaries are not the same size HOT 5
- CONVERT BAM TO U-BAM Error HOT 2
- CollectSamErrorMetrics overlap total bases HOT 1
- BUILD FAILED error HOT 1
- Mark Duplicates - Not Enough Fields Exception HOT 2
- Samtofastq does not retain all the information HOT 5
- Picard build failed HOT 1
- PICARD termination , HOT 2
- BedToIntervalList reportedly does not handle stdin properly HOT 2
- Inconsistencies in Picard MarkDuplicates Histogram Data Output HOT 2
- picard markduplicate issue HOT 2
- Guide to Installing OpenJDK Version 1.8.0_352 on Ubuntu for Picard Tool Compatibility HOT 1
- Conda installer HOT 8
- Picard Cloud HOT 2
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
๐ 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. ๐๐๐
-
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 โค๏ธ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from picard.