Alternatives and similar repositories for RNAmotifs

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

• Xinglab / CLAM
  CLIP-seq Analysis of Multi-mapped reads
  ☆30Updated 3 years ago
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated last year
• Vivianstats / MAAPER
  Model-based analysis of APA using 3' end-linked reads
  ☆9Updated 3 years ago
• bioinfo-biols / Code_for_circSC
  Analysis pipeline for our circSC manuscript
  ☆13Updated 3 years ago
• gxiaolab / mountainClimber
  ☆20Updated 5 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆33Updated 2 years ago
• ElkonLab / scAPA
  This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.
  ☆19Updated 3 years ago
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆24Updated 10 months ago
• frattalab / splicing
  Snakemake pipeline for running MAJIQ
  ☆23Updated last year
• bodegalab / irescue
  Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq
  ☆17Updated 2 months ago
• TheJacksonLaboratory / BRCA-LRseq-pipeline
  Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.
  ☆15Updated 3 years ago
• zhejilab / RibORF
  Identifying genome-wide translated open reading frames using ribosome profiling
  ☆23Updated 2 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆41Updated last year
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆21Updated last year
• wenweixiong / MARVEL
  ☆49Updated 10 months ago
• mehdiborji / nanoranger
  simplified cellranger for long-read data
  ☆19Updated last month
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆33Updated 3 years ago
• YeoLab / singlecell_pnm
  Code and figures accompanying the paper, "Single-cell alternative splicing analysis with Expedition reveals splicing dynamics during neu…
  ☆20Updated 7 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆33Updated 6 years ago
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆24Updated 2 years ago
• YiPeng-Gao / scDaPars
  Dynamic Analysis of Alternative Polyadenylation from single-cell RNA-seq (scDaPars)
  ☆15Updated 4 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 4 years ago
• KCCG / rageseq
  RAGE-seq scripts
  ☆18Updated 3 years ago
• MD-Anderson-Bioinformatics / SpliceSeq
  A tool for investigating alternative mRNA splicing in next generation mRNA sequence data.
  ☆11Updated 8 years ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• shunliubio / easym6A
  Process m6A/MeRIP-seq data in a single or batch job mode
  ☆20Updated 5 years ago
• ashleymaeconard / TIMEOR
  TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R
  ☆16Updated 3 years ago
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆16Updated last year
• henssenlab / TreeShapedRearrangements
  Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)
  ☆15Updated 4 years ago