Alternatives and similar repositories for savana

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

• mortazavilab / TranscriptClean
  Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
  ☆70Updated last year
• epi2me-labs / modbam2bed
  ☆50Updated last month
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆51Updated 2 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• parklab / xTea
  Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
  ☆117Updated 4 months 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 …
  ☆49Updated last week
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆37Updated 2 weeks ago
• DavidsonGroup / flexiplex
  The Flexible Demultiplexer
  ☆36Updated 2 months ago
• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆72Updated last week
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆75Updated last year
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 6 months ago
• COMBINE-lab / oarfish
  long read RNA-seq quantification
  ☆92Updated this week
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆150Updated last month
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆69Updated 2 months ago
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆57Updated 3 years ago
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆117Updated last month
• sbslee / fuc
  Frequently used commands in bioinformatics
  ☆57Updated last year
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• Xinglab / espresso
  ☆63Updated 2 months ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆97Updated last week
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated last month
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 5 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆151Updated 3 weeks ago
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆56Updated 2 years ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated 2 years ago
• nanoporetech / pore-c
  Pore-C support
  ☆53Updated 2 years ago
• bioinfo-chru-strasbourg / vcf2circos
  python plotly Circos from VCF
  ☆40Updated last year
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆63Updated 3 years ago
• vahidAK / NanoMethPhase
  Methylation Phasing for Nanopore Sequencing
  ☆48Updated 2 years ago