98 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Genome-wide estimation of signals hidden in noisy multi-sample HTS datasets | 18K | |
| Gene regulatory network inference | 7K | |
| Copy Number Variant Pathogenicity Classifier | 6K | |
| Testing with PCA projected Concept Activation Vectors | 5K | |
| Provide ready-to-use dataloader for deep learning models | 5K | |
| python module to plot beautiful and highly customizable genome browser tracks | 4K | |
| WASP2: High-performance allele-specific analysis pipeline for next-generation se... | 4K | |
| Toolkit for single-cell DNA methylation analysis. | 3K | |
| Python utility libraries on genome assembly, annotation and comparative genomics | 3K | |
| Annotate variants in a VCF file with technical annotations from one or more BAMs | 3K | |
| A python package and a set of shell commands to handle GTF files | 2K | |
| automatically design sgRNA for exon skipping with many base editors | 2K | |
| METALoci: spatially auto-correlated signals in 3D genomes | 2K | |
| A simple visualisation tool for genomic tracks from sequencing experiments. | 2K | |
| MultiGATE single cell | 2K | |
| circular RNA analysis toolset | 2K | |
| Generate a PanGenome given a set of genomes | 1K | |
| Optimized version of PIPE-CLIP tool (bug fixed) | 1K | |
| Graph-linked unified embedding for single-cell multi-omics data integration | 1K | |
| Secure MCP server for accessing Quilt data with IAM or JWT authentication | 1K | |
| Associate outliers with rare variation | 1K | |
| A method for circular DNA detection based on probabilistic mapping of ultrashort... | 1K | |
| ✂️ Deep learning-based splice site predictor that improves spliced alignments | 1K | |
| Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal | 977 | |
| Tool intended to pull out sequences and annotations between insertion sites spec... | 976 | |
| Analysis tool for NG-Capture-C, Tri-C and Tiled-C data | 869 | |
| Pipeline for Nanopore sequencing: demultiplexing, variant calling, and quality v... | 826 | |
| Graph-based Contrastive Learning enable Fast Single-Cell Embedding | 804 | |
| Peak Identifier for Nascent Transcripts Starts (PINTS) | 802 | |
| Python tools for proteogenomics analysis toolkit | 796 | |
| SMAP is a software package that analyzes next-generation DNA sequencing read map... | 772 | |
| A robust Python tool for the annotation of 3’ UTRs | 755 | |
| Extract Methylation calls from ONT or PB long read data | 746 | |
| An ensemble approach to accurately detect somatic mutations using SomaticSeq | 656 | |
| A python toolbox for processing SPRITE-seq within the cooler universe | 610 | |
| :m: Tool for motif conservation analysis | 605 | |
| https://midas2.readthedocs.io/en/latest/ | 567 | |
| System for turnkey analysis of semi-automated genome annotations | 560 | |
| code for scCross | 534 | |
| CRISPR-HAWK: Haplotype and vAriant-aWare guide design toolKit | 481 | |
| DriverPower | 477 | |
| Annotated sequence data | 469 | |
| Deep-learning-based DEconvolution of Tissue profiles with Accurate Interpretatio... | 460 | |
| Command line tools and python library to infer ploidy, correct for sex chromosom... | 456 | |
| Structural variant caller using low-depth long reads | 434 | |
| Bioinformatic pipelines for analysis of CLIP data | 430 | |
| Epigenetics Utilities from the Downing Lab | 372 | |
| A package for single cell ATAC-seq analysis | 363 | |
| RBP Activity Inference from Splicing Events | 361 | |
| Variant effect prediction plugin for Kipoi | 360 |
