Alternatives and similar repositories for functional-annotation

Users that are interested in functional-annotation are comparing it to the libraries listed below

• FarmGTEx / PigGTEx-Pipeline-v0
  ☆32Updated last year
• pangenome / pggb-workshop
  tutorial on pggb
  ☆34Updated 5 months ago
• junjunlab / GetTransTool
  Extract longest transcript or longest CDS transcript from GTF annotation file or gencode transcripts fasta file.
  ☆21Updated 3 years ago
• iprada / Circle-Map
  A method for circular DNA detection based on probabilistic mapping of ultrashort reads
  ☆63Updated 11 months ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆48Updated 2 years ago
• BioinfoUNIBA / REDItools2
  ☆58Updated 3 years ago
• chensole / bioinformatics
  ☆14Updated 4 years ago
• tsackton / ratite-genomics
  Scripts and other material for the assembly and analysis of ratite genomes.
  ☆26Updated 2 years ago
• guoweilong / cgmaptools
  toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR
  ☆62Updated last year
• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆27Updated 5 years ago
• xuzhougeng / R-ChIP-data-analysis
  ☆50Updated 6 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• abacus-gene / paml-tutorial
  paml documentation and tutorials
  ☆58Updated last month
• Xinglab / espresso
  ☆61Updated 10 months ago
• shuliliu / cattleGTEx
  The cattle Genotype-Tissue Expression atlas v1
  ☆26Updated 2 years ago
• BGI-shenzhen / BamDeal
  BamDeal: a comprehensive toolkit for bam manipulation
  ☆54Updated 2 years ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 3 years ago
• nf-core / isoseq
  Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …
  ☆43Updated 3 weeks ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆58Updated 2 years ago
• FAANG / analysis-TAGADA
  GENE-SWitCH project RNA-Seq analysis pipeline
  ☆26Updated 4 months ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 3 months ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆46Updated 2 months ago
• HajkD / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• petitmingchang / TO-GCN
  Pipeline of time-ordered gene coexpression network (TO-GCN) construction from three-dimensional (gene expression, condition, and time) da…
  ☆50Updated last year
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆52Updated 10 months ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆23Updated 3 months ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆27Updated 4 months ago
• ylipacbio / IsoSeq3
  IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆18Updated 7 years ago
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆59Updated 3 years ago
• fbemm / onefc-oneasm
  Simple code snippets and data for the One Flowcell - One Assembly study
  ☆35Updated 7 years ago