Alternatives and similar repositories for SCALPEL

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

• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆63Updated 8 months ago
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆42Updated 3 months ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆86Updated last year
• gaolabtools / scNanoGPS
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆57Updated 8 months ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆65Updated 2 weeks ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆81Updated last year
• Danko-Lab / proseq2.0
  Preprocesses and Aligns Run-On Sequencing (PRO/GRO/ChRO-seq) data from Single-Read or Paired-End Illumina Sequencing
  ☆30Updated last year
• OlgaVT / Alternative-Splicing-Tools
  A list of alternative splicing analysis resources
  ☆47Updated 10 months ago
• TRON-Bioinformatics / EasyFuse
  EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.
  ☆64Updated 2 weeks ago
• bedapub / splicekit
  splicekit: an integrative toolkit for splicing analysis from short-read RNA-seq
  ☆19Updated 2 months ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆41Updated 3 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated last year
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆39Updated 2 weeks ago
• mortazavilab / lapa
  Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.
  ☆34Updated 2 years ago
• zanglab / SICER2
  ☆23Updated 11 months ago
• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆84Updated 4 years ago
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆74Updated 2 years ago
• Xinglab / espresso
  ☆64Updated 4 months ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆41Updated 2 years ago
• smithlabcode / ribotricer
  A tool for accurately detecting actively translating ORFs from Ribo-seq data
  ☆40Updated last year
• COMBINE-lab / simpleaf
  A rust framework to make using alevin-fry even simpler
  ☆61Updated 9 months ago
• StatBiomed / CamoTSS
  Detection and couting alternative TSS in single cells
  ☆16Updated last year
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆69Updated 6 months ago
• fairliereese / LR-splitpipe
  Demultiplexing and debarcoding tool designed for LR-Split-seq data.
  ☆23Updated 2 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…
  ☆26Updated last year
• ernstlab / full_stack_ChromHMM_annotations
  Data of genome annotation from full-stack ChromHMM model trained with 1032 datasets from 127 reference epigenomes
  ☆38Updated last year
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆51Updated 2 months ago
• BioinfoUNIBA / REDItools2
  ☆60Updated 6 months ago
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated 2 years ago
• kundajelab / idr
  IDR
  ☆30Updated 2 years ago