tomthomas3000

tomthomas3000's Stars

• kdzimm/PseudoreplicationPaper

  Code used to carry out parameter estimation, correlation estimation, type 1 error analysis, and power analysis for our "Pseudoreplication in Single-Cell" study

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• YOU-k/covid_analysis

  scripts used to analyze scRNA and VDJ data sets of covid19 patients

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• ClaudiuCreanga/autumn_school

  Learning material for the Autumn School 2019

  Language:Jupyter Notebook1

• pycam/python-data-science

  Python3 teaching materials for data science (2 days)

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• Teichlab/bbknn

  Batch balanced KNN

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• jdwittenauer/ipython-notebooks

  A collection of IPython notebooks covering various topics.

  Language:Jupyter Notebook2.6k1.5k

• immunogenomics/notch

  Code to reproduce analyses and figures for manuscript: "Synovial fibroblast positional identity controlled by inductive Notch signaling underlies pathologic damage in inflammatory arthritis"

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• NBISweden/excelerate-scRNAseq

  Single RNA-seq data analysis with R (Finland, May, 2019)

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• crazyhottommy/scRNAseq-analysis-notes

  scRNAseq analysis notes from Ming Tang

  614153

• crazyhottommy/getting-started-with-genomics-tools-and-resources

  Unix, R and python tools for genomics and data science

  Language:Shell1.1k339

• lazappi/phd-thesis-analysis

  Code for the analysis chapter of my PhD thesis looking at kidney organoid scRNA-seq data

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• theislab/scanpy-in-R

  A guide to using the Python scRNA-seq analysis package Scanpy from R

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• bburan/NEUS642

  Files for NEUS642

  Language:Jupyter Notebook54

• elo073/TissStab

  Codes for analysing single-cell RNA-sequencing project in Tissue Stability

  Language:Jupyter Notebook71

• j-andrews7/awesome-bioinformatics-benchmarks

  A curated list of bioinformatics bench-marking papers and resources.

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• Teichlab/covid19_MS1

  Analysis notebooks for "SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes".

  Language:Jupyter Notebook138

• cshasha/scRNA-r-python-conversion

  Conversion of SingleCellExperiment objects in R Bioconductor to AnnData objects in Scanpy for scRNA-seq analysis.

  Language:Jupyter Notebook4

• dpeerlab/Harmony

  Harmony framework for connecting scRNA-seq data from discrete time points

  Language:Jupyter Notebook4412

• crazyhottommy/scclusteval

  Single Cell Cluster Evaluation

  Language:R8213

• seandavi/awesome-single-cell

  Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

  3k950

• zktuong/ktplots

  Some tools for plotting single-cell data

  Language:R15730