guma44 / GEOparse
Python library to access Gene Expression Omnibus Database (GEO)
☆150Updated 7 months ago
Alternatives and similar repositories for GEOparse:
Users that are interested in GEOparse are comparing it to the libraries listed below
- A python extension for quick access to bigWig and bigBed files☆226Updated 2 months ago
- A Python implementation of edgeR for differential expression analysis☆102Updated 6 years ago
- [REPLACED by https://github.com/antigenomics/mirpy] Post-analysis of immune repertoire sequencing data☆134Updated 9 months ago
- 🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!☆135Updated last week
- Porting DESeq2 into python via rpy2☆68Updated last year
- TCR and BCR assembly from RNA-seq data☆298Updated this week
- zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs☆278Updated 8 months ago
- predicting expression effects of human genome variants ab initio from sequence☆127Updated last month
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆216Updated this week
- A scanpy extension to analyse single-cell TCR and BCR data.☆226Updated this week
- Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl☆391Updated 9 months ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆151Updated 7 months ago
- A SingleCell RNASeq pre-processing snakemake workflow☆147Updated 2 years ago
- Differential expression analysis for single-cell RNA-seq data.☆196Updated 3 weeks ago
- Performant Pythonic GenomicRanges☆460Updated last week
- ENCODE ChIP-seq pipeline☆262Updated last year
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆126Updated last year
- TF MOtif Discovery from Importance SCOres☆134Updated last year
- T/B cell receptor sequencing analysis notes☆245Updated 3 months ago
- GTEx & TOPMed data production and analysis pipelines☆358Updated last month
- A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.☆182Updated 2 months ago
- Customizable workflows based on snakemake and python for the analysis of NGS data☆394Updated this week
- Course material in notebook format for learning about single cell bioinformatics methods☆102Updated 8 years ago
- Cell types enrichment analysis☆194Updated 9 months ago
- 📚 Tools and databases for analyzing HLA and VDJ genes.☆219Updated 3 months ago
- muon is a multimodal omics Python framework☆229Updated 3 weeks ago
- MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.☆344Updated last week
- HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.☆239Updated 3 months ago
- Single-cell epigenomics analysis tools☆247Updated last week
- Reference mapping for single-cell genomics☆358Updated 3 weeks ago