Alternatives and similar repositories for long-read-rna-pipeline:

Users that are interested in long-read-rna-pipeline are comparing it to the libraries listed below

• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆39Updated last month
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆58Updated 4 months ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆59Updated last year
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 4 months ago
• GeneDx / scramble
  ☆39Updated 9 months ago
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆13Updated 10 months ago
• epi2me-labs / modbam2bed
  ☆48Updated 5 months ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆24Updated last week
• cortes-ciriano-lab / savana
  Somatic structural variant caller for long-read data
  ☆57Updated this week
• Xinglab / espresso
  ☆58Updated 6 months ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆44Updated 2 years ago
• nanoporetech / pipeline-pinfish-analysis
  Pipeline for annotating genomes using long read transcriptomics data with pinfish
  ☆28Updated 4 years ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆46Updated 4 years ago
• Shians / NanoMethViz
  ☆25Updated 3 weeks ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆36Updated this week
• mortazavilab / TranscriptClean
  Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
  ☆68Updated last year
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆50Updated 2 years ago
• gaoyubang / nanom6A
  ☆21Updated 2 years ago
• stephenfloor / extract-transcript-regions
  For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…
  ☆34Updated last year
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆41Updated last week
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆54Updated last month
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆54Updated 2 years ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆49Updated 6 months ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆67Updated 5 months ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆23Updated 9 months ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆38Updated 3 years ago
• bergmanlab / drosophila-transposons
  Drosophila transposable element canonical sequences
  ☆28Updated 2 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆32Updated 9 years ago