Alternatives and similar repositories for igv-jupyter:

Users that are interested in igv-jupyter are comparing it to the libraries listed below

• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆124Updated 5 years ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆146Updated last month
• alimanfoo / pysamstats
  A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …
  ☆194Updated 2 weeks ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆101Updated 5 months ago
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆319Updated last month
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆239Updated 5 months ago
• mdshw5 / fastqp
  Simple FASTQ quality assessment using Python
  ☆108Updated 3 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆250Updated last month
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆113Updated 4 months ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆134Updated 2 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆215Updated 9 months ago
• konstantint / pyliftover
  Pure-python implementation of UCSC liftOver genome coordinate conversion
  ☆94Updated last year
• lh3 / readfq
  Fast multi-line FASTA/Q reader in several programming languages
  ☆176Updated 3 years ago
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆244Updated 4 months ago
• igvteam / igv-webapp
  IGV Web App
  ☆120Updated last week
• stevekm / nextflow-demos
  Example Nextflow pipelines and programming techniques
  ☆105Updated 4 months ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆202Updated 4 years ago
• daler / gffutils
  GFF and GTF file manipulation and interconversion
  ☆299Updated last year
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆148Updated 10 months ago
• brentp / peddy
  genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF
  ☆137Updated 3 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆326Updated last month
• biowdl / tasks
  A collection of reusable WDL tasks. Category:Other
  ☆86Updated this week
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆310Updated last month
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆187Updated this week
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆196Updated last year
• gagneurlab / drop
  Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
  ☆140Updated this week
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆157Updated 2 years ago
• nf-core / fetchngs
  Pipeline to fetch metadata and raw FastQ files from public databases
  ☆174Updated last week