Overview
Installation
Basic requirements
Acknowledgements
Support
Citation
References
Tutorial:
Singularity preprocessing
Loading data for analysis
V(D)J analysis
Singularity changeo clonotype calling
V(D)J pseudobulk feature space
Advanced Guide:
Pre-processing (Re-annotation)
Reading 10X Cell Ranger output directly
Interoperability with
scirpy
Filtering
V(D)J clustering
Visualizing V(D)J data
Calculating diversity and mutation
Analyzing TCR data
V(D)J Trajectory
Dandelion class
API:
Preprocessing:
pp
dandelion.preprocessing.assign_isotype
dandelion.preprocessing.assign_isotypes
dandelion.preprocessing.check_contigs
dandelion.preprocessing.create_germlines
dandelion.preprocessing.filter_contigs
filter_contigs()
dandelion.preprocessing.format_fasta
dandelion.preprocessing.format_fastas
dandelion.preprocessing.reannotate_genes
dandelion.preprocessing.reassign_alleles
Tools:
tl
Plotting:
pl
Utilities:
utl
Dandelion
Logging
External
dandelion
Preprocessing:
pp
dandelion.preprocessing.filter_contigs
View page source
dandelion.preprocessing.filter_contigs
dandelion.preprocessing.
filter_contigs
(
*
args
,
**
kwargs
)
Deprecate function