Alternatives and similar repositories for scSeqR:

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

• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 2 years ago
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆47Updated last year
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated 7 months ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 8 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆28Updated 4 years ago
• brwnj / umitools
  Tools to handle reads sequenced with unique molecular identifiers (UMIs).
  ☆30Updated 7 years ago
• kkdey / CountClust
  A R package for Grade of Membership model and Visualization of counts data:
  ☆31Updated 4 years ago
• slowkow / proxysnps
  Get SNP proxies from the 1000 Genomes Project.
  ☆28Updated 6 years ago
• Neurosurgery-Brain-Tumor-Center-DiazLab / scell
  Single-CELL rna-seq analysis software
  ☆38Updated 7 years ago
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆47Updated last month
• Teichlab / GPfates
  ☆19Updated 7 years ago
• hms-dbmi / scw
  HSCI/Catalyst Single-cell RNA-Seq Workshop
  ☆19Updated 5 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆28Updated 5 months ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆22Updated 6 years ago
• cancerdatasci / ceres
  Computational correction of copy-number effect in CRISPR-Cas9 essentiality screens
  ☆27Updated 5 years ago
• hall-lab / gtex
  GTEx analysis scripts
  ☆20Updated 7 years ago
• PhanstielLab / Sushi
  Tools for visualizing genomics data
  ☆67Updated 3 years ago
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated 7 months ago
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆16Updated 6 years ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆41Updated 3 years ago
• joepickrell / fgwas
  Functional genomics and genome-wide association studies
  ☆65Updated 6 years ago
• slowkow / snpsea
  Identify cell types and pathways affected by genetic risk loci.
  ☆36Updated 11 months ago
• Shians / Glimma
  Glimma R package
  ☆50Updated 4 months ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆40Updated 3 years ago
• csoneson / alevinQC
  Create QC and summary reports for Alevin output
  ☆31Updated last month
• kdkorthauer / scDD
  R package to identify genes with differential distributions in single-cell RNA-seq
  ☆32Updated 2 years ago
• thelovelab / tximeta
  Transcript quantification import with automatic metadata detection
  ☆67Updated last week
• francescojm / ADAM
  Adaptive Daisy Model to discriminate core-fitness/context-specific essential genes in large scale CRISPR-Cas9 screens
  ☆22Updated 5 years ago
• yuchaojiang / Canopy
  Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.
  ☆69Updated 3 years ago