94 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Dataloader for applying sequence models to personalized genomics | 24K | |
| Tools to process and analyze deep sequencing data. | 21K | |
| SigProfilerTopography allows evaluating the effect of chromatin organization, hi... | 17K | |
| exprmat: Routines for expression matrices | 15K | |
| CrossMap is a python program to lift over genome coordinates from one genome ver... | 9K | |
| Copy Number Variant Pathogenicity Classifier | 6K | |
| A toolkit for processing single cell Hi-C data | 5K | |
| Nucleobench optimizers and tasks. | 5K | |
| Provide ready-to-use dataloader for deep learning models | 5K | |
| gReLU is a python library to train, interpret, and apply deep learning models to... | 4K | |
| python module to plot beautiful and highly customizable genome browser tracks | 4K | |
| Toolkit for single-cell DNA methylation analysis. | 3K | |
| QC package for RNA-seq data. | 3K | |
| FinaleToolkit is a package and standalone program to extract fragmentation featu... | 3K | |
| Genome Dashboard is the logic behind a web-based prototype of a genomics dashboa... | 2K | |
| Collection of analysis tools for quantitative trait loci | 2K | |
| A python package and a set of shell commands to handle GTF files | 2K | |
| Tools which deal with multiple single cell measurements | 2K | |
| A command-line tool for reading SAM/BAM files and converted them directly to big... | 2K | |
| NucFlag misassembly identifier. | 2K | |
| RNA 5' and 3' End Correction Tool with Intron Refinement and Ambiguity Resolutio... | 1K | |
| Python implementation to calc mappability-sensitive cross-correlation for fragme... | 1K | |
| Secure MCP server for accessing Quilt data with IAM or JWT authentication | 1K | |
| Dataset generation and peak calling for multi-modal Next-Generation Sequencing d... | 1K | |
| A genomewide multiscale energy minimization model. | 1K | |
| Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal | 977 | |
| The Genomedata format for storing large-scale functional genomics data. | 892 | |
| The trackplot is a tool for visualizing various next-generation sequencing (NGS)... | 852 | |
| Bioconvert is a collaborative project to facilitate the interconversion of life ... | 834 | |
| Peak Identifier for Nascent Transcripts Starts (PINTS) | 802 | |
| A software that simulates the dynamics of DNA replication by following a sofisti... | 734 | |
| Correct Read Counts and Analysis of Differently Expressed Regions | 690 | |
| Data preprocessing for bolero package | 648 | |
| trackc aims to produce beautiful genome tracks that are highly customizable | 616 | |
| :m: Tool for motif conservation analysis | 605 | |
| Add a short description here! | 601 | |
| A visualisation tool for Hi-C dataset. | 584 | |
| SIRVsuite is a command line tool to QC an RNA-Seq workflow using Lexogen's SIRV ... | 530 | |
| Genomic region based arrays backed by TileDB | 529 | |
| Transcription Factor Motif Instance Neighborhood Decomposition and Interpretatio... | 520 | |
| An energy-based stochastic model of loop extrusion in chromatin. | 492 | |
| A python package with useful biological data processing methods | 475 | |
| Annotated sequence data | 469 | |
| A command-line utility for calculating GC percentages of genome sequences | 468 | |
| Deep-learning-based DEconvolution of Tissue profiles with Accurate Interpretatio... | 460 | |
| A modernized rewrite of RSeQC (RNA-seq Quality Control) | 430 | |
| A model used for Hi-C prediction | 408 | |
| 生信常用工具合集，包括gtf/fastx/bam/bed格式文件的处理和转换，bam,bed注释工具，R绘图脚本等。 | 393 | |
| Identify fertile ground in genomes for minimal-edit regulatory design. | 367 | |
| Predict the impact of promoter variants on gene expression | 357 |
