Reverse Dependencies of pyranges

The following projects have a declared dependency on pyranges:

• aacrgenie — AACR Project GENIE ETL
• aMGSIM — aMGSIM: simulate ancient metagenomes for multiple synthetic communities
• bam-filter — A simple tool to filter references from a BAM file using different filter types
• bedshift — BED file perturbations
• biocre — no summary
• bolero — sequence
• bolero-process — Data preprocessing for bolero package
• bwread — Read bigwig files into Python data science formats.
• callingcardstools — A collection of objects and functions to work with calling cards sequencing tools
• capcruncher — An end-to-end solution for processing Capture-C, Tri-C and Tiled-C data
• cell-tools — cell_tools - Analysis Tools for Single-Cell Data
• creme-nn — An in silico perturbation framework to interpret large-scale genomic deep learning
• dismal — Demographic inference from the distribution of pairwise segregating sites
• enformer-dna-diff — This is a package for that combines DeepMind Enformer model with DNA Diffusion project
• epigenetics-utilities — Epigenetics Utilities from the Downing Lab
• epilogos — Information-theoretic navigation of multi-tissue functional genomic annotations
• epiout — EpiOut: outlier detection for DNA accesibility data.
• epipackpy — EpiPack: scATAC-seq integration, reference mapping and cell type annotation
• ExpreLev — TPM/CPM/FPKM analysis
• extend-orfs — MModule description
• fuc — Frequently used commands in bioinformatics
• gaiaAssociation — Compare ATAC-seq data to loci.
• ghfc-utils — Various tools and scripts used in the GHFC lab
• glue-genes — Multidimensional data visualization for genomics
• gollumpy — detection of rings on acrocentric chromosomes using short reads sequencing
• GPS-mapping — Genetics-informed pathogenic spatial mapping
• gsMap — Genetics-informed pathogenic spatial mapping
• guido — no summary
• handygenome — An integrated platform for genome sequencing analysis
• hellobc — XuLab package for single-cell RNA-seq data upstream processing.
• HiCPlot — plot heatmaps from Hi-C matrix and tracks from bigwig files
• hl7v2GenomicsExtractor — Convert vcf/xml files to HL7V2 message
• isocomp — no summary
• kipoiseq — kipoiseq: sequence-based data-loaders for Kipoi
• lapa — Tools for alternative polyadenylation detection and analysis from diverse data sources (3'seq and long-reads) and transcript start site detection and analysis from long-read RNA-seq.
• leafcutterITI — LeafcutterITI implementation
• LeafletSC — Alternative splicing quantification in single cells with Leaflet
• MATES — no summary
• megrim — A bioinformatics tutorial framework for epi2me-labs
• mepylome — Python package for processing Infinum DNA methylation arrays
• metagene — Metagene Profiling Analysis and Visualization
• momics — A package to create and manage genome-related TileDB arrays
• motifdata — Motif representation and analysis toolkit
• nanomix — Methods for cell type deconvolution from Oxford Nanopore methylation calling
• omniplot — To draw scientific plots easily
• primer-explorer2 — A small library to help K-seq users to select primers.
• py3dpolys-le — 3D Polymer Simulations - Loop Extrusion model
• pyroe — utilities of alevin-fry
• refine-contigs — A simple tool to identify and clean misassemblies for ancient metagenomics
• region-selection-apr — Methods for filtering for high-scoring genomic intervals
• scdna-replication-tools — Code for analyzing single-cell replication dynamics
• scgenome — Code for analyzing single cell whole genomes
• scmallet — Python wrapper of MALLET for LDA analysis on single-cell data
• SEACells — no summary
• seqdata — Annotated sequence data
• seqnado — Pipelines for genomics analysis
• singlem — Novelty-inclusive microbial community profiling of shotgun metagenomes
• vcf2fhir — Convert .vcf files to HL7 FHIR standard
• vcf2fhir-test-517 — Convert .vcf files to HL7 FHIR standard
• vcf2fhir-test-upgrade-test-upgrade — Convert .vcf files to HL7 FHIR standard