gpertea / gffcompare

Related projects ⓘ

Alternatives and complementary repositories for gffcompare

• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆192Updated last week
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆106Updated last year
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆128Updated last year
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆198Updated this week
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆251Updated 4 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆153Updated last year
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆213Updated last year
• kcleal / gw
  Genome browser and variant annotation
  ☆279Updated last week
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆179Updated this week
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆111Updated 2 weeks ago
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆138Updated 2 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆125Updated 2 years ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆224Updated 2 weeks ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆282Updated last week
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆200Updated 10 months ago
• nf-core / fetchngs
  Pipeline to fetch metadata and raw FastQ files from public databases
  ☆151Updated this week
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆194Updated last month
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆171Updated this week
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆272Updated 2 weeks ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆261Updated 4 months ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆230Updated this week
• GoekeLab / bambu
  Reference-guided transcript discovery and quantification for long read RNA-Seq data
  ☆188Updated this week
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆217Updated 2 months ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆233Updated 5 months ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆206Updated 11 months ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆187Updated 10 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆211Updated 3 years ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆182Updated 5 months ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆151Updated 2 months ago