Alternatives and similar repositories for digenome-toolkit2

Users that are interested in digenome-toolkit2 are comparing it to the libraries listed below

• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 7 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆97Updated last week
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆51Updated 2 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• SyntekabioTools / HLAscan
  ☆25Updated 5 years ago
• dieterich-lab / JACUSA2
  New version of JACUSA -> 2.0
  ☆29Updated last month
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆22Updated 2 weeks ago
• LabShengLi / nanome
  NANOME pipeline (Nanopore long-read sequencing consensus DNA methylation detection method and pipeline)
  ☆33Updated last month
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 9 months ago
• TrinityCTAT / CTAT-LR-fusion
  fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector
  ☆22Updated last month
• OliveiraDS-hub / ChimeraTE
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆34Updated 3 months ago
• ucdavis-bioinformatics / proc10xG
  processing 10x genomics reads
  ☆26Updated 6 years ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years 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, …
  ☆51Updated last month
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated 2 months ago
• BioinfoUNIBA / REDItools2
  ☆59Updated 4 months ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 6 months ago
• mortazavilab / TranscriptClean
  Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
  ☆70Updated last year
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆55Updated 5 months ago
• Xinglab / espresso
  ☆63Updated 2 months ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• ISUgenomics / SequelTools
  new repo
  ☆28Updated 4 years ago
• srbehera / DRAGEN_Analysis
  ☆37Updated last year
• nanoporetech / pipeline-umi-amplicon
  Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
  ☆34Updated last year
• oliverSI / GATK4_Best_Practice
  GATK4 Best Practice Nextflow Pipeline
  ☆33Updated 7 years ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated 2 years ago
• comprna / CHEUI
  Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing
  ☆42Updated last year
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆69Updated 2 months ago