Alternatives and similar repositories for TFFM:

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

• nellore / runs
  Scripts for reproducing analyses of large RNA-seq datasets
  ☆15Updated 5 years ago
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated 7 months ago
• tengmx / rnaseqcomp
  Benchmarks for RNA-seq quantification pipelines
  ☆8Updated 4 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 5 years ago
• brentp / 450k-analysis-guide
  A Practical (And Opinionated) Guide To Analyzing 450K Data
  ☆35Updated 10 years ago
• seandavi / SRAdbV2
  R Interface to the NCBI SRA metadata
  ☆23Updated 6 years ago
• lucapinello / Haystack
  Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆30Updated 7 years ago
• ratschlab / mmr
  A tool for Read Multi-Mapper Resolution
  ☆23Updated 7 years ago
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated last year
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 8 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆28Updated 5 months ago
• tengmx / gcapc
  ChIP-seq peak calling with GC effects adjustment
  ☆9Updated 6 years ago
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 6 years ago
• COMBINE-lab / shoal
  Improved multi-sample transcript abundance estimates using adaptive priors
  ☆20Updated 6 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆28Updated 5 months ago
• rthurman / hotspot
  Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.
  ☆14Updated 10 years ago
• ryanlayer / svv
  Stupid Simple Structural Variant View
  ☆25Updated 8 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆22Updated 6 years ago
• ryanlayer / ssec2
  Stupid Simple Elastic Compute Cloud
  ☆16Updated last year
• kundajelab / training_camp
  Genetics training camp
  ☆21Updated 4 years ago
• ChristopherWilks / snaptron
  fast webservices based query tool for large sets of genomic features
  ☆25Updated last year
• quinlan-lab / mendelianerror
  probability of mendelian error in trios.
  ☆11Updated 9 years ago
• ruolin / strawberry
  A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)
  ☆23Updated 3 years ago
• markrobinsonuzh / CrispRVariants
  ☆24Updated 4 years ago
• pachterlab / sleuth_paper_analysis
  Code to reproduce analyses from the sleuth paper
  ☆16Updated 6 years ago
• SnakeChunks / SnakeChunks
  Modular blocks to build Snakemake workflows for reproducible NGS analyses
  ☆22Updated 5 years ago
• statOmics / stageR
  stageR package
  ☆11Updated last year
• churchill-lab / g2gtools
  Personal diploid genome creation and coordinate conversion
  ☆23Updated this week
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆33Updated last month
• pachterlab / aggregationDE
  Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter
  ☆19Updated 6 years ago