Alternatives and similar repositories for TFFM

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

• tengmx / rnaseqcomp
  Benchmarks for RNA-seq quantification pipelines
  ☆8Updated 5 years ago
• lucapinello / Haystack
  Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆31Updated 7 years ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 8 years ago
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated last year
• markrobinsonuzh / CrispRVariants
  ☆25Updated 4 years ago
• ibn-salem / sevenC
  7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
  ☆13Updated 6 years ago
• brentp / 450k-analysis-guide
  A Practical (And Opinionated) Guide To Analyzing 450K Data
  ☆35Updated 10 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated last year
• Teichlab / GPfates
  ☆21Updated 8 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 5 years ago
• tengmx / gcapc
  ChIP-seq peak calling with GC effects adjustment
  ☆9Updated 7 years ago
• friend1ws / pmsignature
  R package for extracting mutation signatures from a list of somatic mutations
  ☆37Updated 6 years ago
• kkdey / Logolas
  R package for Enrichment Depletion Logos (EDLogos) and String Logos
  ☆27Updated 6 years ago
• seandavi / SRAdbV2
  R Interface to the NCBI SRA metadata
  ☆23Updated 6 years ago
• ratschlab / mmr
  A tool for Read Multi-Mapper Resolution
  ☆23Updated 8 years ago
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated 2 years ago
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 7 years ago
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆29Updated 5 years ago
• salmonteam / SalmonBlogResponse
  Response to blog post about Salmon
  ☆37Updated 7 years ago
• Xinglab / rPGA
  ☆13Updated 9 years ago
• jernst98 / ChromImpute
  ☆16Updated last year
• omerwe / LEAP
  Liability Estimation for Case-Control Studies
  ☆10Updated 4 years ago
• rthurman / hotspot
  Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.
  ☆16Updated 11 years ago
• shenlab-sinai / region_analysis
  A python script used to annotate genomic intervals.
  ☆18Updated 5 years ago
• nellore / runs
  Scripts for reproducing analyses of large RNA-seq datasets
  ☆15Updated 6 years ago
• pachterlab / bears_analyses
  Examples of kallisto + sleuth
  ☆11Updated 8 years ago
• SnakeChunks / SnakeChunks
  Modular blocks to build Snakemake workflows for reproducible NGS analyses
  ☆22Updated 5 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆23Updated 6 years ago
• mikelove / zinbwave-deseq2
  Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq
  ☆31Updated 4 years ago
• hartleys / JunctionSeq
  The JunctionSeq R package is a powerful tool for testing and visualizing differential usage of exons and splice junctions in next-generat…
  ☆28Updated 8 years ago