Alternatives and similar repositories for splice2neo:

Users that are interested in splice2neo are comparing it to the libraries listed below

• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆30Updated last year
• icbi-lab / NeoFuse
  NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
  ☆19Updated 2 years ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• TobiTekath / DTUrtle
  Perform differential transcript usage (DTU) analysis of bulk or single-cell RNA-seq data. See documentation at:
  ☆20Updated 11 months ago
• ShixiangWang / sigflow
  Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow
  ☆27Updated 5 months ago
• mehdiborji / nanoranger
  simplified cellranger for long-read data
  ☆18Updated 5 months ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• openvax / isovar
  Assembly of RNA reads to determine the effect of a cancer mutation on protein sequence
  ☆25Updated 5 months ago
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 5 years ago
• zhongw2 / GeneTEFlow
  ☆23Updated 3 years ago
• BIMSBbioinfo / HOT-or-not-examining-the-basis-of-high-occupancy-target-regions
  HOT regions paper
  ☆11Updated 5 years ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆17Updated 3 weeks ago
• JSB-UCLA / Clipper
  A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions
  ☆39Updated 2 years ago
• julienrichardalbert / MEA
  ☆9Updated 5 years ago
• Xinglab / rMATS-long
  ☆28Updated 3 months ago
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated last year
• ashleymaeconard / TIMEOR
  TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R
  ☆16Updated 3 years ago
• rbundschuh / SMaSH
  A tool for sample swap identification in high throughput sequencing studies
  ☆10Updated last week
• comprna / ORQAS
  ORF Quantification pipeline for Alternative Splicing
  ☆16Updated 3 years ago
• lagelab / quack
  Machine learning algorithm to predict biological pathway relationships based on functional genomics networks
  ☆20Updated 6 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆27Updated 2 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 5 months ago
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆23Updated 2 years ago
• sfu-compbio / citup
  Clonality Inference in Multiple Tumor Samples using Phylogeny
  ☆14Updated 9 years ago
• djhn75 / RNAEditor
  ☆15Updated 2 years ago
• gersteinlab / FunSeq2
  A flexible framework to annotate and prioritize cancer somatic mutations.
  ☆8Updated 7 years ago
• McGranahanLab / mhc-hammer
  Pipeline to detect HLA disruption from WES and RNAseq data
  ☆16Updated 3 weeks ago
• Xinglab / CLAM
  CLIP-seq Analysis of Multi-mapped reads
  ☆29Updated 3 years ago
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆20Updated last year