duopeng

duopeng's Stars

• CGATOxford/UMI-tools

  Tools for handling Unique Molecular Identifiers in NGS data sets

  Language:Python491190

• pachterlab/seqspec

  machine-readable file format for genomic library sequence and structure

  Language:Python11417

• thegenemyers/FASTGA

  Pairwise whole genome aligner

  Language:C1396

• mehta-lab/VisCy

  computer vision models for single-cell phenotyping

  Language:Python373

• czbiohub-sf/DeepGenotype

  Calculate the outcome genotype frequencies in CRISPR genome editing experiments using deep sequencing reads.

  Language:HTML1

• togethercomputer/stripedhyena

  Repository for StripedHyena, a state-of-the-art beyond Transformer architecture

  Language:Python29621

• facebookresearch/ijepa

  Official codebase for I-JEPA, the Image-based Joint-Embedding Predictive Architecture. First outlined in the CVPR paper, "Self-supervised learning from images with a joint-embedding predictive architecture."

  Language:Python2.8k356

• chanzuckerberg/alhazen

  AI agents + toolkits for scientific knowledge

  Language:Jupyter Notebook23

• GfellerLab/SuperCell

  Coarse-graining of large single-cell RNA-seq data into metacells

  Language:R6811

• duopeng/Cas13a_guides_Influenza

  Predict Cas13a guides for Influenza detection.

  Language:Jupyter Notebook1

• czbiohub-sf/Organelle_IP_analyses_and_figures

  Jupyter notebooks for analysis and figures related to the native organelle IP paper

  Language:Jupyter Notebook41

• yttria-aniseia/fastq-lengths

  Language:C2

• lazappi/clustree

  Visualise Clusterings at Different Resolutions

  Language:R21715

• czbiohub-sf/GenoPrimer

  Automated primer design for genotyping CRISPR edited cells

  Language:HTML2

• Arize-ai/phoenix

  AI Observability & Evaluation

  Language:Jupyter Notebook4k294

• duopeng/JuncSeq

  Extract splice junction sequences and make base-frequency plots

  Language:Python4

• cxli233/ggpathway

  A tutorial for pathway visualization using tidyverse, igraph, and ggraph

  555

• jump-cellpainting/datasets

  Images and other data from the JUMP Cell Painting Consortium

  Language:Shell16217

• czbiohub-sf/CRISPRflow

  MAGeCK analysis automated by Nextflow

  Language:R2

• ml4bio/CLEAR

  CLEAR: Self-supervised contrastive learning for integrative single-cell RNA-seq data analysis

  Language:Python308

• alematia/MaGplotR

  A software for Genetic Screens data visualization

  Language:R5

• snigdhaAgarwal/HostFactorNetworkPropogation

  1

• czbiohub-sf/protoSpaceJAM

  CRISPR knock-in design at scale

  Language:Python71

• xbwei/lbsocial-tgis

  A GIS tool and demo dataset for analyzing location‐based social media activities

  Language:Python2

• maximilianh/crisporWebsite

  All source code of the crispor.org website

  Language:C7242

• marbl/CHM13

  The complete sequence of a human genome

  91999

• czbiohub-sf/AIRRscape

  R Shiny tool to interactively visualize and analyze antibody repertoires

  Language:R10

• royerlab/cytoself

  Self-supervised models for encoding protein localization patterns from microscopy images

  Language:Python7414

• rougier/scientific-visualization-book

  An open access book on scientific visualization using python and matplotlib

  Language:Python10.7k993

• jo-m-lab/ARBOL

  Language:HTML181