Alternatives and similar repositories for SCALE:

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

• edsgard / scphaser
  R package for haplotype phasing using single-cell RNA-seq data
  ☆13Updated 7 years ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆31Updated 3 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆28Updated 7 months ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated 9 months ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• kauralasoo / wiggleplotr
  A small R package to make sequencing read coverage plots in R.
  ☆37Updated 2 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…
  ☆21Updated 8 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆28Updated 2 years ago
• gersteinlab / FunSeq2
  A flexible framework to annotate and prioritize cancer somatic mutations.
  ☆8Updated 7 years ago
• single-cell-genetics / singlecell_neuroseq_paper
  Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation
  ☆21Updated 8 months ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated this week
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆43Updated last year
• jacobhepkema / scover
  scover
  ☆23Updated last year
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 5 years ago
• fmicompbio / eisaR
  Exon-Intron Split Analysis (EISA) in R
  ☆16Updated last month
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆15Updated last year
• lagelab / quack
  Machine learning algorithm to predict biological pathway relationships based on functional genomics networks
  ☆20Updated 6 years ago
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆21Updated last year
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated 3 months ago
• natsuhiko / PHM
  Pairwise Hierarchical Model
  ☆17Updated 3 years ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• csoneson / rna_velocity_quant
  Evaluation of the effect of quantification choices on RNA velocity estimates
  ☆27Updated 3 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 2 months ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆20Updated last year
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆23Updated 2 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆22Updated 6 years ago
• dcalderon / rolypoly
  Method for identifying trait-relevant gene annotations from GWAS summary statistics.
  ☆17Updated 2 years ago
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆16Updated 5 years ago