Comments (3)
mizraelson
commented on July 19, 2024
Hi, can you share the align report for the sample where you expect the missing chain?
from mixcr.
MikolajKocikowski
commented on July 19, 2024
Hi! I attach two files from samples known to contain kappas among other chains. Barcode09 file produced the IGK output file with one chain, Barcode10 did not. Moderate alignment success rate is expected due to the nature of the library. Samples contain scFvs and some single chain constructs. Thanks for taking a look!
barcode09_result.align.report.txt
barcode10_result.align.report.txt
from mixcr.
mizraelson
commented on July 19, 2024
I see, well the successfully aligned reads rate is rather low indeed here. Is it possible to identify a read that covers IGK from the the original FASTQ file but appears not to be aligned correctly?
from mixcr.
Related Issues (20)
- Unexpected behavior when running mixcr analyze from a script HOT 2
- Artificial Diversity Correction HOT 1
- Artificial gaps in reported amino acid sequences HOT 2
- UMI with Nanopore Data HOT 1
- Mixcr to VDJtools HOT 1
- TotalReads count not set HOT 10
- Number of aligned reads distinct between preset rna-seq and generic-amplicon-with-umi HOT 1
- UMI-based error correction HOT 1
- RefineTagsAndSort HOT 1
- For detection of somatic hypermutation (SHM) ? HOT 1
- postanalysis NullPointerException HOT 9
- Somatic hypermutation analysis HOT 1
- Analysis of single chain Fragment variable (scFv) HOT 1
- Error exportPlots shmTrees - Duplicate library: repseqio.v4.0_with_found_alleles:10090 HOT 2
- transitioning from postanalysis to exportPlots HOT 1
- Somatic Hypermutation Status of IGHV status HOT 2
- Question about filtering reads prior to Mixcr HOT 1
- Preset for long-read RNAseq with cell barcode HOT 1
- How to perform MiXCR on my spatial TCR data HOT 1
- The problem of mixcr exportPlots shmTrees HOT 3
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 mixcr.