Alternatives and similar repositories for NanoFG:

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

• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year
• cortes-ciriano-lab / ReConPlot
  ☆21Updated 3 months ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 2 weeks ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• sdchandra / CNAclinic
  ☆23Updated 7 months ago
• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆30Updated 3 weeks ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 9 years ago
• LappalainenLab / lorals
  ☆33Updated last year
• zhongw2 / GeneTEFlow
  ☆23Updated 3 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 6 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 5 months ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆39Updated last week
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆18Updated this week
• Xinglab / rMATS-long
  ☆28Updated 3 months ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆42Updated last month
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• ZhaiLab-SUSTech / snuupy
  single-nucleus nanopore reads processing pipeline
  ☆15Updated last year
• XiDsLab / TAGET
  ☆17Updated 2 years ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆31Updated 3 years ago
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 2 years ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆28Updated 8 months ago
• sanjaynagi / rna-seq-pop
  Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
  ☆18Updated 3 months ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆59Updated 5 months ago
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆13Updated 11 months ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 3 years ago
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆39Updated 2 years ago