Alternatives and similar repositories for samql

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

• brentp / fraguracy
  overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites
  ☆33Updated 5 months ago
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆62Updated last year
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆31Updated 3 months ago
• flalom / vcf-reformatter
  🧬 High-performance VCF file parser and reformatter with VEP annotation support. Converts complex VCF files to analyzable TSV format …
  ☆43Updated 3 months ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆34Updated 2 years ago
• rhpvorderman / sequali
  Fast sequencing data quality metrics
  ☆31Updated 2 months ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆35Updated 8 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 3 years ago
• brentp / bigly
  a pileup library that embraces the huge
  ☆43Updated 5 years ago
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆38Updated 6 months ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆39Updated last year
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• lh3 / sgdp-fermi
  FermiKit small variant calls for public SGDP samples
  ☆17Updated 9 years ago
• xuchang116 / smCounter
  smCounter: a versatile UMI-aware variant caller to detect both somatic and germline SNVs and indels. Published in article "Detecting very…
  ☆20Updated 6 years ago
• OceanGenomics / mudskipper
  A tool for projecting genomic alignments to transcriptomic coordinates
  ☆36Updated last year
• smarco / gem3-mapper
  GEM-Mapper v3
  ☆58Updated this week
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆66Updated last week
• molgenis / vip
  Variant Interpretation Pipeline
  ☆44Updated 2 weeks ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 5 years ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• dillonl / graphite
  Graphite - Graph-based variant adjudication
  ☆28Updated 4 years ago
• jfarek / xatlas
  ☆31Updated 3 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• genepi / haplocheck
  Phylogeny-based Contamination Detection in Mitochondrial and Whole-Genome Sequencing Studies
  ☆18Updated 2 years ago
• fakedrtom / SVAFotate
  ☆44Updated last year
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆38Updated 9 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• kensung-lab / INSurVeyor
  An insertion caller for Illumina paired-end WGS data.
  ☆23Updated 3 months ago