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TCR-BCR-seq-analysis

T/B cell receptor sequencing analysis notes

MIT18500

CellChat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics

Language:RGPL-3.018200

CellChat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

Language:RGPL-3.059500

bypy

Python client for Baidu Yun (Personal Cloud Storage) 百度云/百度网盘Python客户端

Language:PythonMIT755200

ROGUE

Assessing the purity of single cell population

Language:RBSD-3-Clause8500

istar

Language:PythonGPL-3.06600

survival

Survival package for R

Language:R36300

miniforge

A conda-forge distribution.

Language:ShellNOASSERTION552100

VISION

Signature Analysis and Visualization for Single-Cell RNA-seq

Language:RMIT13900

iqtree2

NEW location of IQ-TREE software for efficient phylogenomic software by maximum likelihood http://www.iqtree.org

Language:C++GPL-2.021500

figtree

Automatically exported from code.google.com/p/figtree

Language:Java37200

KPTracer-release

Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"

Language:Jupyter Notebook1000

NextClone

Nextflow pipeline for extracting and counting clonal barcodes

Language:PythonMIT400

SAW

Language:HTMLGPL-3.011100

SSN_scRNA-seq

The codes and files for the study of subsolid nodules (SSN).

Language:R1100

3ca

Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".

Language:RMIT6200

dandelion

dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data

Language:Jupyter NotebookAGPL-3.08900

PSI-Sigma

Language:PerlNOASSERTION3500

alphafold

Open source code for AlphaFold.

Language:PythonApache-2.01194000

simplifyEnrichment

Simplify functional enrichment results

Language:RNOASSERTION9900

gptstudio

GPT RStudio addins that enable GPT assisted coding, writing & analysis

Language:RNOASSERTION86000

Scissor

Scissor package

Language:C++GPL-3.016300

velorama

Gene regulatory network inference for RNA velocity and pseudotime data

Language:PythonMIT1900

CellOracle

This is the alpha version of the CellOracle package

Language:PythonNOASSERTION28500

Scribe-py

Regulatory networks with Direct Information in python

Language:PythonBSD-3-Clause3800

ChatGPT

Reverse engineered ChatGPT API

Language:PythonGPL-2.02795500

bigSCale2

Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data

Language:R10200

ChatGPT

🔮 ChatGPT Desktop Application (Mac, Windows and Linux)

Language:Rust5078700

locaTE.jl

Dynamical information enables inference of gene regulation at single-cell scale

Language:JuliaMIT800

LinTIMaT

Lineage Tracing by Integrating Mutation and Transcriptomic data

Language:HTMLNOASSERTION1200