Pinned Repositories
BCR_TCR_PROCESSING_PIPELINE
BCR/TCR processing pipeline for NGS data
clusTCR
CDR3 clustering module providing a new method for fast and accurate clustering of large data sets of CDR3 amino acid sequences, and offering functionalities for downstream analysis of clustering results.
COVID_vax_CD8
Data and scripts for study Minervina, Pogorelyy et al. 2021
DeepTCR
Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
ggheatmap
ggplot2 version of heatmap
Immprint
ImmPrint answers the question "were these two samples extracted from the same individual ?" by looking at the numbers and sequences of shared unique TCR between the two samples.
RTCR
A pipeline for complete and accurate recovery of TCR repertoires from high throughput sequencing data.
tcr-annotation-methodology
📝 [Paper/Tutorial] T-cell repertoire annotation and motif discovery
tcr-dist
Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
tcrregex
regex based motif discovery
Rosemary94's Repositories
Rosemary94/DeepTCR
Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
Rosemary94/Immprint
ImmPrint answers the question "were these two samples extracted from the same individual ?" by looking at the numbers and sequences of shared unique TCR between the two samples.
Rosemary94/RTCR
A pipeline for complete and accurate recovery of TCR repertoires from high throughput sequencing data.
Rosemary94/tcr-annotation-methodology
📝 [Paper/Tutorial] T-cell repertoire annotation and motif discovery
Rosemary94/tcr-dist
Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
Rosemary94/tcrregex
regex based motif discovery
Rosemary94/BCR_TCR_PROCESSING_PIPELINE
BCR/TCR processing pipeline for NGS data
Rosemary94/clusTCR
CDR3 clustering module providing a new method for fast and accurate clustering of large data sets of CDR3 amino acid sequences, and offering functionalities for downstream analysis of clustering results.
Rosemary94/COVID_vax_CD8
Data and scripts for study Minervina, Pogorelyy et al. 2021
Rosemary94/ggheatmap
ggplot2 version of heatmap
Rosemary94/immunarch
🧬 Immunarch by ImmunoMind: R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
Rosemary94/Interactive-Data-Visualization-with-Python
Present your data as an effective and compelling story
Rosemary94/jupyter
Jupyter metapackage for installation, docs and chat
Rosemary94/mixcr
MiXCR is a universal software for fast and accurate extraction of T- and B- cell receptor repertoires from any type of sequencing data. Free for academic use only.
Rosemary94/pwseqdist
A small package that efficiently computes distances between genetic sequences. Can accommodate similarity matrices, sequences of different lengths and custom metrics.
Rosemary94/scirpy
A scanpy extension to analyse single-cell TCR and BCR data.
Rosemary94/tcr
[DEPRECATED, see https://immunarch.com/] tcR: an R package for immune receptor repertoire advanced data analysis.
Rosemary94/TCR-Classifier
Classifier to determine CD8+ T-cell receptor characteristics underlying peptide recognition.
Rosemary94/tcr-pmhc
A deep learning network for predicting TCR-pMHC binding
Rosemary94/TCR_pairings
Companion repository of https://www.biorxiv.org/content/early/2018/06/28/353128
Rosemary94/tcrdist2
Quantifiable predictive features define epitope-specific T cell receptor repertoires
Rosemary94/tcrdist3
flexible CDR based distance metrics
Rosemary94/TCRdist_automation
Scripts for automating the running of TCRdist
Rosemary94/vdjdb-db
Git-based TCR database storage & management. Submissions welcome!
Rosemary94/vdjtools
Post-analysis of immune repertoire sequencing data