Alternatives and similar repositories for JunctionSeq

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

• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated 11 months ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆37Updated last year
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated 2 years ago
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆29Updated 5 years ago
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 7 years ago
• mozack / vdjer
  V'DJer - B Cell Receptor Repertoire Reconstruction from short read mRNA-Seq data
  ☆29Updated 2 years ago
• mikelove / zinbwave-deseq2
  Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq
  ☆31Updated 4 years ago
• ProSolo / prosolo
  ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.
  ☆22Updated 3 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆23Updated 6 years ago
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆29Updated 6 years ago
• ExpressionAnalysis / HLAProfiler
  Using k-mers to call HLA alleles in RNA sequencing data
  ☆22Updated 6 years ago
• pachterlab / aggregationDE
  Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter
  ☆19Updated 7 years ago
• finkelsteinlab / freebarcodes
  FREE Divergence Error-Correcting DNA Barcodes
  ☆9Updated 7 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated last year
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• ruolin / strawberry
  A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)
  ☆23Updated 4 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆35Updated 2 years ago
• jtleek / svaseq
  Analysis for svaseq paper
  ☆19Updated 10 years ago
• genemine / iread
  iread
  ☆25Updated 4 years ago
• SimoneTiberi / BANDITS
  BANDITS: Bayesian ANalysis of DIfferenTial Splicing
  ☆18Updated last year
• csoneson / alevinQC
  Create QC and summary reports for Alevin output
  ☆32Updated 3 months ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 4 years ago
• AstraZeneca-NGS / disambiguate
  Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem
  ☆31Updated 7 years ago
• yuifu / millefy
  Millefy: Genome browser-like visualization of single-cell RNA-seq dataset
  ☆29Updated 5 years ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆28Updated 2 years ago
• favorov / stereogene
  ☆12Updated last month
• kauralasoo / wiggleplotr
  A small R package to make sequencing read coverage plots in R.
  ☆39Updated 3 years ago
• mritchielab / GlimmaV2
  interactive plots for differential expression analysis
  ☆32Updated 3 weeks ago