643 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome ari... | 170K | |
| non-redundant, compressed, journalled, file-based storage for biological sequenc... | 78K | |
| CREsted is a Python package for training sequence-based deep learning models on ... | 62K | |
| HTSeq is a Python library to facilitate processing and analysis of data from hi... | 39K | |
| Python bindings for BWA | 25K | |
| Dataloader for applying sequence models to personalized genomics | 24K | |
| Virus discovery | 21K | |
| Tools to process and analyze deep sequencing data. | 21K | |
| Bioinformatics genetic barcode demultiplexing (Spatial Transcriptomics) | 19K | |
| Assembly of RNA reads to determine the effect of a cancer mutation on protein se... | 17K | |
| A Python package for handling and visualizing GWAS summary statistics. https://c... | 16K | |
| exprmat: Routines for expression matrices | 15K | |
| Extract 3D contacts (.pairs) from sequencing alignments | 14K | |
| Transcriptome mapping in two colors | 14K | |
| Library for managing Galaxy plugins - tools, index data, and workflows. | 12K | |
| SCIV algorithm | 11K | |
| Sequence correction provided by ONT Research | 11K | |
| Toolkit for calling structural variants using short or long reads | 10K | |
| CrossMap is a python program to lift over genome coordinates from one genome ver... | 9K | |
| eCharts plotting API. | 8K | |
| HMM-based footprint caller for single molecule footprinting data | 8K | |
| 8K | ||
| Polygenic score toolkit | 8K | |
| Frequently used commands in bioinformatics | 7K | |
| Ultima Genomics core bioinfo utils | 7K | |
| A short tandem repeat (STR) genotyping and analysis toolkit for long reads | 6K | |
| Command line interface to create new modules/pipelines or adding a new rule to a... | 6K | |
| User Friendly Application for Comprehensive Transcriptome Analysis | 6K | |
| Sequana: a set of Snakemake NGS pipelines | 6K | |
| Copy Number Variant Pathogenicity Classifier | 6K | |
| Robust Open Chromatin Detection via Convex Optimization: Multisample Consensus P... | 6K | |
| 🔬 Genotyping tool for genome-edited samples using nanopore-targeted sequencing | 6K | |
| A toolkit for processing single cell Hi-C data | 5K | |
| Neural network sequence error correction. | 5K | |
| Data intensive science for everyone. | 5K | |
| Provide ready-to-use dataloader for deep learning models | 5K | |
| Strain Genome Explorer: a tool suite for tracking and characterizing low-abundan... | 5K | |
| Tools for handling Unique Molecular Identifiers in NGS data sets | 4K | |
| MERGE 变异致病性预测 CLI（服务器固定，集成模型内嵌，无需手动配置） | 4K | |
| Chip-based CRISPR analysis | 4K | |
| Clodius is a tool for breaking up large data sets into smaller tiles that can su... | 4K | |
| Single Cell Analysis Pipelines | 4K | |
| Copy number variant detection from targeted DNA sequencing | 4K | |
| python utils for genomic variant (WIP) | 4K | |
| Galaxy application (backend) | 4K | |
| Read-based phasing of genomic variants, also called haplotype assembly | 4K | |
| CIViC variant knowledgebase analysis toolkit. | 4K | |
| Reusable tools for working with next-generation sequencing (NGS) data | 4K | |
| Mixture Models for Allelic Imbalance Estimation | 4K | |
| PheTK Official Repository | 4K |
