Alternatives and similar repositories for SAMChain

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

• eturro / mmseq
  Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
  ☆68Updated last year
• vicsanga / Postre
  POSTRE: Prediction Of STRuctural variant Effects
  ☆28Updated 3 weeks ago
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆62Updated last year
• lpantano / seqcluster
  small RNA analysis from NGS data
  ☆38Updated last year
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆42Updated 5 months ago
• wassermanlab / Variant_catalogue_pipeline
  Variant catalogue pipeline
  ☆26Updated last week
• montilab / nf-gwas-pipeline
  A Nextflow Genome-Wide Association Study (GWAS) Pipeline
  ☆36Updated 7 months ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 3 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• jandrewrfarrell / RUFUS
  RUFUS k-mer based genomic variant detection
  ☆54Updated last month
• KCCG / mity
  mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data
  ☆40Updated 4 months ago
• sigven / gvanno
  Generic human DNA variant annotation pipeline
  ☆59Updated last year
• oliverSI / GATK4_Best_Practice
  GATK4 Best Practice Nextflow Pipeline
  ☆33Updated 8 years ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆50Updated 2 weeks ago
• hms-dbmi / chromoscope
  Interactive multiscale visualization for structural variation in human genomes
  ☆71Updated last week
• LosicLab / starchip
  Detection of Circular RNA and Fusions from RNA-Seq
  ☆32Updated 7 years ago
• biocorecrg / MOP2
  Master of Pores 2
  ☆23Updated last year
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• macarthur-lab / tx_annotation
  Code associated with 2019 manuscript entitled "Transcript expression-aware annotation improves rare variant discovery and interpretation…
  ☆34Updated 3 years ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆37Updated last year
• HuntsmanCancerInstitute / USeq
  180+ Java applications for analyzing next generation sequencing data from ChIPSeq, RNASeq, BisSeq, DNASeq, variant annotation/ filtering,…
  ☆18Updated 3 months ago
• nf-core / rnasplice
  rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
  ☆63Updated 8 months ago
• Kuanhao-Chao / splam
  ✂️ Deep learning-based splice site predictor that improves spliced alignments
  ☆59Updated 11 months ago
• mehrdadbakhtiari / adVNTR
  A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
  ☆47Updated last year
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆59Updated 8 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated 2 years ago
• COMBINE-lab / wasabi
  Prepare Sailfish and Salmon output for downstream analysis
  ☆42Updated 6 years ago
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆22Updated 3 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• molgenis / capice
  ☆27Updated last year