Comments (2)
sfchen
commented on May 30, 2024
gz is already supported, if you have any problem using it to parse gz file, update here.
AfterQC currently does adapter trimming automatically if it meets:
1, it is pair-end sequencing
2, the original DNA template is shorter than sequencing cycles, so that it may sequence the adapters in the read1/read2 tail.
Note that Illumina bcl2fastq already supports some adapter trimming now, so you don't need to worry about adapter any more, except the case above.
The barcode in the command line help is only for single molecule barcoding, so just ignore that.
from afterqc.
colindaven
commented on May 30, 2024
Ok, thanks! Seems to work well.
from afterqc.
Related Issues (20)
- Removal of PCR/RNA primers HOT 1
- Tool to keep reads where all bases are above a specific quality score. HOT 2
- output gzipped data HOT 3
- ValueError: max() arg is an empty sequence HOT 3
- AterQc HOT 2
- Report
- output files are truncated
- filter only for poly-X but nothing else HOT 9
- Afterqc with pypy HOT 3
- Issue with overlap analysis HOT 4
- Read length distributon after processing HOT 7
- question about AfterQC/preprocesser.py
- AfterQC total bases calculation HOT 1
- Float division by zero in circledetector.py
- AfterQC in FASTQ joined
- Error despite creating env with 2.7 in conda
- Remove overrepresented sequences
- String index out of range. HOT 1
- bubble
- My bioconda install Python version
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 afterqc.