Alternatives and similar repositories for TE-Seq

Users that are interested in TE-Seq are comparing it to the libraries listed below

• dwinter / repeatR
  read and analyse RepeatMasker output
  ☆24Updated 2 years ago
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆26Updated 2 months ago
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆24Updated last month
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆19Updated 7 months ago
• OliveiraDS-hub / ChimeraTE
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆29Updated 3 weeks ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆21Updated 4 years ago
• FAANG / analysis-TAGADA
  GENE-SWitCH project RNA-Seq analysis pipeline
  ☆26Updated 3 months ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆34Updated 2 years ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆65Updated 2 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• DrosophilaGenomeEvolution / TrEMOLO
  Transposable Elements MOvement detection using LOng reads
  ☆21Updated 3 weeks ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆30Updated 5 months ago
• jmsong2 / GenomeSyn
  We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …
  ☆27Updated 3 years ago
• eswlab / orphan-prediction
  methods for orphan gene prediction paper optimization
  ☆25Updated 3 years ago
• IGDRion / ANNEXA
  Nextflow pipeline to extend reference annotation with nanopore reads, classify novel genes (mRNAs vs lncRNAs).
  ☆13Updated 2 weeks ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆33Updated last year
• hahnlab / CAGEE
  Computational Analysis of Gene Expression Evolution
  ☆41Updated last week
• SandraLouise / SVJedi-graph
  SV genotyper for long reads with a variation graph
  ☆12Updated 2 months ago
• NBISweden / TransposonPSI
  TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…
  ☆13Updated 5 years ago
• cfarkas / annotate_my_genomes
  A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes
  ☆29Updated last year
• cmdoret / tinycov
  Command line tool to plot genomic coverage from a BAM file
  ☆13Updated 2 years ago
• Maggi-Chen / FusionSeeker
  A gene fusion caller for long-read transcriptome sequencing data.
  ☆18Updated last year
• JBerthelier / ParasiTE
  Invertory of TE-gene isoforms
  ☆11Updated last year
• human-pangenomics / hprc-tutorials
  ☆17Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• legumeinfo / pandagma
  Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.
  ☆17Updated this week
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆42Updated last year
• fanagislab / EndHiC
  EndHic is a fast and easy-to-use Hi-C scaffolding tool, using the Hi-C links from contig end regions instead of whole contig regions to a…
  ☆23Updated 2 years ago
• Bean061 / ptgaul
  chloroplast genome assembly using long reads data
  ☆12Updated 2 years ago
• Rinoahu / SwiftOrtho
  A high performance tool to identify orthologs and paralogs across genomes.
  ☆26Updated 2 years ago