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    120 repositories

    • EpiSCORE

      Public
      Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
      R
      •10•0•0•0•Updated Jun 21, 2022Jun 21, 2022

    • wgbs_tools

      Public
      tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
      Python
      •
      Other
      •39•0•0•0•Updated Feb 13, 2022Feb 13, 2022

    • hms-health-demo-java

      Public
      HMS Health demo code provides demo programs for your reference or usage. Developers can access the Huawei Health Platform and obtain sports & health data by integrating HUAWEI Health.
      Java
      •
      Apache License 2.0
      •17•0•0•0•Updated Jan 13, 2022Jan 13, 2022

    • scAge

      Public
      Profiling epigenetic age in single cells
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •7•1•0•0•Updated Dec 11, 2021Dec 11, 2021

    • flipflop

      Public
      Python code to accompany our paper "Cell lineage tracing with molecular clocks based on fluctuating DNA methylation"
      Python
      •
      MIT License
      •1•0•0•0•Updated Aug 31, 2021Aug 31, 2021

    • Hitrava

      Public
      Convert your Huawei Health sport activities and import them in Strava.
      Python
      •
      Other
      •36•0•0•0•Updated Aug 31, 2021Aug 31, 2021

    • Circle_finder

      Public
      Micro DNA identification
      Shell
      •
      MIT License
      •13•0•0•0•Updated Aug 5, 2021Aug 5, 2021

    • alphafold

      Public
      Open source code for AlphaFold.
      Python
      •
      Apache License 2.0
      •2.3k•0•0•0•Updated Jul 23, 2021Jul 23, 2021

    • scTE

      Public
      Jupyter Notebook
      •
      MIT License
      •28•0•0•0•Updated Jul 19, 2021Jul 19, 2021

    • DNABERT

      Public
      DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
      Python
      •163•0•0•0•Updated Jul 14, 2021Jul 14, 2021

    • cpg-transformer

      Public
      CpG Transformer for imputation of single-cell methylomes
      Python
      •
      MIT License
      •10•0•0•0•Updated Jun 10, 2021Jun 10, 2021

    • LinearPartition

      Public
      Linear-Time Approximation of RNA Folding Partition Function and Base Pairing Probabilities
      C++
      •
      Other
      •18•0•0•0•Updated May 19, 2021May 19, 2021

    • DISMIR

      Public
      Python
      •11•0•0•0•Updated May 6, 2021May 6, 2021

    • CelliD

      Public
      Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
      R
      •
      GNU General Public License v3.0
      •19•0•0•0•Updated Apr 30, 2021Apr 30, 2021

    • bert-rbp

      Public
      Python
      •10•0•0•0•Updated Apr 29, 2021Apr 29, 2021

    • vase

      Public
      Variant Annotation, Segregation and Exclusion for family or cohort based rare-disease sequencing studies.
      Python
      •
      MIT License
      •2•0•0•0•Updated Jan 27, 2021Jan 27, 2021

    • msisensor-ct

      Public
      Microsatellite instability (MSI) detection for cfDNA samples.
      Makefile
      •
      GNU General Public License v3.0
      •0•2•0•0•Updated Jan 15, 2021Jan 15, 2021

    • ChromWave

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Jan 11, 2021Jan 11, 2021

    • single-cell-pseudotime

      Public
      An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
      Creative Commons Attribution 4.0 International
      •62•0•0•0•Updated Sep 21, 2020Sep 21, 2020

    • CaSpER

      Public
      R
      •28•0•0•0•Updated Sep 9, 2020Sep 9, 2020

    • mgatk

      Public
      mgatk: mitochondrial genome analysis toolkit
      Python
      •
      MIT License
      •30•0•0•0•Updated Aug 29, 2020Aug 29, 2020

    • scRNAseq-BladderCancer

      Public
      Collaboration with David Mulholland at Mount Sinai for invasive Bladder Cancer
      R
      •
      GNU General Public License v3.0
      •6•0•0•0•Updated Aug 20, 2020Aug 20, 2020

    • harmony

      Public
      Fast, sensitive and accurate integration of single-cell data with Harmony
      R
      •
      GNU General Public License v3.0
      •102•0•0•0•Updated Aug 14, 2020Aug 14, 2020

    • LineageTreeBuilder

      Public
      3•0•0•0•Updated Aug 4, 2020Aug 4, 2020

    • dmatch

      Public
      C++
      •2•0•0•0•Updated Jul 19, 2020Jul 19, 2020

    • chromWaveR

      Public
      R package to predict nucleosome(/TF) occupancy from DNA sequence using pre-trained chromWave models.
      R
      •1•0•0•0•Updated Jun 30, 2020Jun 30, 2020

    • sinto

      Public
      Tools for single-cell data processing
      Python
      •
      MIT License
      •25•0•0•0•Updated Jun 19, 2020Jun 19, 2020

    • celfie

      Public
      cfDNA cell type of origin estimation
      Jupyter Notebook
      •
      GNU Affero General Public License v3.0
      •14•0•0•0•Updated Jun 3, 2020Jun 3, 2020

    • mocha

      Public
      MOsaic CHromosomal Alterations (MoChA) caller
      C
      •
      MIT License
      •23•0•0•0•Updated Jun 3, 2020Jun 3, 2020

    • Kallisto-scATAC

      Public
      Jupyter Notebook
      •
      Creative Commons Attribution 4.0 International
      •1•0•0•0•Updated May 19, 2020May 19, 2020