Alternatives and similar repositories for paraseq:

Users that are interested in paraseq are comparing it to the libraries listed below

• vsbuffalo / hgindex
  Hierarchical binned indexed data store for on-disk genomic data.
  ☆14Updated 3 months ago
• nh13 / fqme
  ☆22Updated 4 months ago
• vsbuffalo / genomap
  A Rust library for storing generic genomic data by sorted chromosome name
  ☆17Updated 6 months ago
• COMBINE-lab / piscem-infer
  ☆14Updated last year
• fulcrumgenomics / pybedlite
  Lightweight Python interfaces for reading, writing, and querying Genomic Regions (BED)
  ☆14Updated 2 weeks ago
• ProSolo / prosolo
  ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.
  ☆22Updated 3 years ago
• ArcInstitute / binseq
  A high efficiency binary format for sequencing data
  ☆30Updated this week
• collaborativebioinformatics / nibSV
  ☆9Updated 3 years ago
• 38 / pyd4
  The python binding for D4 format
  ☆16Updated 3 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 6 months ago
• nf-core / kmermaid
  k-mer similarity analysis pipeline
  ☆21Updated 2 months ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 2 years ago
• pierrepeterlongo / kmer2sequences
  Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.
  ☆21Updated last year
• BUStools / BUS-format
  BUS format specification
  ☆14Updated 5 years ago
• iqbal-lab-org / minos
  Variant call adjudication
  ☆16Updated 10 months ago
• jslfree080 / bamscope
  A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)
  ☆10Updated last year
• DecodeGenetics / read_haps
  Detects human contamination in bam files
  ☆16Updated 4 years ago
• abs-tudelft / variant-calling-at-scale
  Scalable and High Performance Variant Calling on Cluster Environments
  ☆10Updated 3 years ago
• mlinderm / npsv
  Non-parametric structural variant genotyper
  ☆15Updated 3 years ago
• varfish-org / mehari
  VEP-like tool for sequence ontology and HGVS annotation of VCF files
  ☆19Updated last week
• dellytools / maze
  maze: match visualizer
  ☆9Updated 3 years ago
• brentp / spacepile
  convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.
  ☆14Updated 2 years ago
• daihang16 / nubeamdedup
  Removing PCR duplicates for sequencing reads.
  ☆14Updated 4 years ago
• BiocPy / GenomicRanges
  Container class to represent genomic locations and support genomic analysis
  ☆20Updated this week
• jaudoux / kamix
  Index and query k-mer matrices in BGZF
  ☆12Updated 6 years ago
• dnanexus / IndexTools
  IndexTools is a toolkit for extremely fast NGS analysis based on index files.
  ☆17Updated 2 years ago
• uclahs-cds / tool-NFTest
  CLI to automate Nextflow pipeline testing
  ☆12Updated last month
• sstadick / bam-builder
  Wrapper over rust-htslib for building collections of BAM records for testing.
  ☆11Updated last year
• taylor-lab / annotateMaf
  Add functional variant annotation to MAF file
  ☆11Updated 5 months ago
• brentp / pbr
  drunk on perbase pileups and lua expressions
  ☆17Updated last year