Alternatives and similar repositories for Clipper

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

• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆36Updated last week
• zhongw2 / GeneTEFlow
  ☆23Updated 4 years ago
• mehdiborji / nanoranger
  simplified cellranger for long-read data
  ☆19Updated 3 months ago
• Xinglab / rMATS-long
  ☆30Updated 7 months ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• jfjlaros / demultiplex
  Versatile FASTA/FASTQ demultiplexer.
  ☆33Updated last year
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆21Updated last year
• s-andrews / sradownloader
  A script to make downloading of SRA/GEO data easier
  ☆31Updated last year
• TRON-Bioinformatics / splice2neo
  R package to analyze aberrant splicing junctions in tumor samples to identify neoepitopes
  ☆14Updated 3 months ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆35Updated last year
• zhejilab / RibORF
  Identifying genome-wide translated open reading frames using ribosome profiling
  ☆23Updated 2 years ago
• lcalviell / ORFquant
  An R package for Splice-aware quantification of translation using Ribo-seq data
  ☆19Updated last year
• yyoshiaki / VIRTUS
  A bioinformatics pipeline for viral transcriptome detection and quantification considering splicing.
  ☆34Updated 3 years ago
• djhn75 / RNAEditor
  ☆15Updated 2 years ago
• smlmbrt / SimilarityRegression
  Predicting TF sequence-specificity similarity with weighted alignments
  ☆13Updated 5 years ago
• icbi-lab / NeoFuse
  NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
  ☆19Updated 2 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• pepkit / geofetch
  Builds a PEP from SRA or GEO accessions
  ☆52Updated 3 weeks ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 4 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• XueyiDong / LongReadBenchmark
  Benchmarking long-read RNA-seq analysis tools
  ☆27Updated 5 months ago
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated 2 years ago
• splicebox / MntJULiP
  Comprehensive and scalable differential splicing analyses
  ☆17Updated 4 months ago
• frattalab / splicing
  Snakemake pipeline for running MAJIQ
  ☆23Updated last year
• mritchielab / GlimmaV2
  interactive plots for differential expression analysis
  ☆32Updated last month
• Vivianstats / MAAPER
  Model-based analysis of APA using 3' end-linked reads
  ☆10Updated 3 years ago
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆44Updated 3 weeks ago
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆16Updated last year
• gagneurlab / absplice
  ☆39Updated last month
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆27Updated last year