Alternatives and similar repositories for mgikit:

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

• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆17Updated 2 months ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆25Updated 7 months ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago
• alevar / tiebrush
  Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)
  ☆16Updated 3 months ago
• fulcrumgenomics / fgsv
  Tools to gather evidence for structural variation via breakpoint detection.
  ☆19Updated last month
• rbundschuh / SMaSH
  A tool for sample swap identification in high throughput sequencing studies
  ☆10Updated 2 years ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆26Updated 4 months ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆27Updated 6 months ago
• sigven / cacao
  Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer
  ☆21Updated 4 years ago
• pughlab / VisCap
  VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…
  ☆22Updated 5 years ago
• Xinglab / rMATS-long
  ☆25Updated last month
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆38Updated last year
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• SD-Genomics / DeviCNV
  Detection and Visualization of Exon-Level Copy Number Variants in Targeted Next Generation Sequencing Data
  ☆17Updated 3 years ago
• cortes-ciriano-lab / ReConPlot
  ☆21Updated last month
• aakechin / cutPrimers
  curPrimers is a tool for trimming primer sequences from amplicon based NGS reads
  ☆17Updated 5 years ago
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆32Updated 2 years ago
• HudsonAlpha / CSL_public_benchmark
  Location of public benchmarking; primarily final results
  ☆18Updated 2 years ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 5 years ago
• ding-lab / BreakPointSurveyor
  A comprehensive pipeline to analyze and visualize structural variants
  ☆20Updated 4 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 2 years ago
• myriad-opensource / samwell
  Samwell: a python package for using genomic files... well
  ☆19Updated 2 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆15Updated last year
• shahcompbio / timescape
  Visualization tool for temporal clonal evolution.
  ☆16Updated 4 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 2 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆39Updated 4 months ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆13Updated last year
• rvolden / Mandalorion-Episode-II
  Version II of Mandalorion
  ☆32Updated 5 years ago
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆27Updated 3 months ago
• bioinform / ecTMB
  ☆19Updated 3 years ago