Alternatives and similar repositories for scasa

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

• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 4 years ago
• salzman-lab / SICILIAN
  ☆23Updated last year
• TheJacksonLaboratory / BRCA-LRseq-pipeline
  Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.
  ☆16Updated 3 years ago
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆35Updated 3 years ago
• jacobhepkema / scover
  scover
  ☆24Updated 2 years ago
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆16Updated last year
• yizhak-lab-ccg / RNA_MUTECt_WMN
  ☆25Updated 3 years ago
• jsschrepping / r_docker
  Docker container for genomics analyses in R.
  ☆26Updated last year
• sigven / oncoEnrichR
  Explore the cancer relevance of your gene list
  ☆52Updated 2 months ago
• songlab-cal / scquint
  ☆18Updated last year
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 7 years ago
• dakwok / SSNIP
  The Spatial Splicing-derived Neoantigen Identifier Pipeline (SSNIP) allows for the precise characterization of neoantigens derived from c…
  ☆20Updated 7 months ago
• JSB-UCLA / Clipper
  A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions
  ☆40Updated 3 years ago
• JSB-UCLA / scReadSim
  A single cell sequencing read simulator.
  ☆33Updated last year
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆29Updated 4 years ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆29Updated 2 years ago
• caleblareau / mitoblacklist
  Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome
  ☆22Updated 3 years ago
• jw156605 / SingleSplice
  Algorithm for detecting alternative splicing in a population of single cells. See details in Welch et al., Nucleic Acids Research 2016: h…
  ☆22Updated 9 years ago
• mikelove / zinbwave-deseq2
  Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq
  ☆31Updated 4 years ago
• yasinkaymaz / singleCellRNAseq_workshop
  Introduction to single cell RNAseq data analysis and interpretation course work provided by Harvard Informatics Team.
  ☆16Updated 7 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆32Updated 3 years ago
• frattalab / splicing
  Snakemake pipeline for running MAJIQ
  ☆23Updated last year
• GreenleafLab / ChrAccR
  Analyzing chromatin accessibility data in R
  ☆18Updated 2 years ago
• PoolLab / ReferenceEnhancer
  ☆20Updated 2 years ago
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆43Updated 3 weeks ago
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆35Updated 3 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆29Updated 5 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• nuno-agostinho / psichomics
  Interactive R package to quantify, analyse and visualise alternative splicing
  ☆37Updated this week
• lcalviell / ORFquant
  An R package for Splice-aware quantification of translation using Ribo-seq data
  ☆19Updated last year