Alternatives and similar repositories for savana

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

• 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 …
  ☆45Updated last month
• epi2me-labs / modbam2bed
  ☆49Updated last year
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆63Updated 10 months ago
• parklab / xTea
  Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
  ☆116Updated last month
• DavidsonGroup / flexiplex
  The Flexible Demultiplexer
  ☆34Updated this week
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆66Updated 3 months ago
• mortazavilab / TranscriptClean
  Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
  ☆69Updated last year
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆50Updated 2 years ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆108Updated 3 weeks ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated last year
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆144Updated 3 weeks ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆118Updated 4 months ago
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆115Updated 5 months ago
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆56Updated 3 years ago
• COMBINE-lab / oarfish
  long read RNA-seq quantification
  ☆88Updated this week
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆149Updated last week
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 3 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆143Updated last week
• comprna / RATTLE
  Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing
  ☆58Updated last year
• vahidAK / NanoMethPhase
  Methylation Phasing for Nanopore Sequencing
  ☆48Updated 2 years ago
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆46Updated 4 years ago
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆35Updated last week
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 10 months ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆134Updated last year
• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆68Updated 5 months ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• giesselmann / nanopype
  Snakemake pipelines for nanopore sequencing data archiving and processing
  ☆91Updated 3 years ago
• nanoporetech / pore-c
  Pore-C support
  ☆53Updated 2 years ago
• bioinfo-chru-strasbourg / vcf2circos
  python plotly Circos from VCF
  ☆38Updated last year