afvallejo

afvallejo's Stars

• googlecolab/colabtools

  Python libraries for Google Colaboratory

  Language:Jupyter Notebook2.2k814.5k716

• scverse/scanpy

  Single-cell analysis in Python. Scales to >1M cells.

  Language:Python1.9k511.7k597

• MultiQC/MultiQC

  Aggregate results from bioinformatics analyses across many samples into a single report.

  Language:JavaScript1.2k351.6k599

• hbctraining/scRNA-seq

  Language:SCSS5333933222

• Teichlab/scg_lib_structs

  Collections of library structure and sequence of popular single cell genomic methods

  Language:HTML424321388

• aristoteleo/dynamo-release

  Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

  Language:Python4151025759

• NVIDIA-Genomics-Research/rapids-single-cell-examples

  Examples of single-cell genomic analysis accelerated with RAPIDS

  Language:Jupyter Notebook324173468

• openproblems-bio/openproblems

  Formalizing and benchmarking open problems in single-cell genomics

  Language:Python317718479

• genecell/single-cell-papers-with-code

  Papers with code for single cell related papers

  26712069

• crazyhottommy/awesome_spatial_omics

  tools and notes for spatial omics

  23515146

• cookiejar/cookietemple

  A collection of best practice cookiecutter templates for all domains and languages with extensive Github support ⛺

  Language:Python156628110

• waldronlab/data-science-seminar

  Topics In Data Science and Bioinformatics

  Language:HTML78461034

• saezlab/CARNIVAL

  CAusal Reasoning for Network Identification with integer VALue programming in R

  Language:R57105829

• theislab/spatial_scog_workshop_2022

  Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022

  Language:Jupyter Notebook499027

• haniffalab/scRNA-seq_analysis

  Single cell RNA-seq analysis bundle

  Language:R312010

• csoneson/rna_velocity_quant

  Evaluation of the effect of quantification choices on RNA velocity estimates

  Language:Makefile27503

• broadinstitute/gtex-single-nucleus-reference

  Code repository for the snRNA-seq cross-tissue atlas project

  Language:Jupyter Notebook20916

• ZhikunWu/Bioinformatic-resources

  Language:Python163114

• haniffalab/HCA_skin

  HCA data analysis

  Language:Jupyter Notebook14113

• saezlab/progeny-py

  PROGENY Python implementation

  Language:Jupyter Notebook12633

• pachterlab/Bi-BE-CS-183-2022

  Website for the 2021-2022 Caltech class Bi/BE/CS 183: Introduction to Computational Biology and Bioinformatics

  Language:Jupyter Notebook8601

• pachterlab/GPCTP_2019

  Notebooks for reproducing figures and results from the paper Gehring et al., Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins, Nature Biotechnology (2019) doi:10.1038/s41587-019-0372-z

  Language:Jupyter Notebook6332

• pachterlab/BLCSBGLKP_2020

  Code for analysis of SARS-CoV-2 sequencing based diagnostic testing data

  Language:Jupyter Notebook5503

• lazappi/lazappi

  My GitHub profile README

  Language:R2301

• QSBSC/QSBSC_Class_2020

  New repository for class on Quantitative Systems Biology in Single Cells @ Vanderbilt U.

  Language:HTML2701

• gmoncu/SysMalVac

  This repository contains the scripts used in the Moncunill et al. (2020) manuscript about transcriptional signatures of protection upon malaria sporozoite and RTS,S/AS01E immunizations

  Language:R1100

• kanefos/workshop-scRNAseq

  Single cell RNA sequencing analysis course

  Language:Jupyter Notebook1001

• miquelduranfrigola/sysmalvac_enrichment

  Language:Jupyter Notebook1100

• SydneyBioX/CiteFuse2020Kim

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• vkorobeynyk/scRNA-seq_analysis_jessberger_lab

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