Alternatives and similar repositories for kallisto-nf:

Users that are interested in kallisto-nf are comparing it to the libraries listed below

• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 6 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• HadrienG / nanoflow
  De novo assembly of nanopore reads using nextflow
  ☆20Updated 4 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• IARCbioinfo / alignment-nf
  Whole Exome/Whole Genome Sequencing alignment pipeline
  ☆28Updated 7 months ago
• nf-core / cookiecutter
  DEPRECIATED! Please use nf-core/tools instead
  ☆19Updated 6 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• nf-core / exoseq
  Please consider using/contributing to https://github.com/nf-core/sarek
  ☆16Updated 6 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 7 years ago
• s-andrews / BamQC
  Mapped QC analysis program
  ☆44Updated 6 years ago
• evanfloden / tuxedo-nf
  A Nextflow implementation of the Tuxedo Suite of Tools: HISAT, StringTie & Ballgown
  ☆10Updated 7 years ago
• SexChrLab / XYalign
  ☆23Updated 5 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆66Updated 2 years ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 5 years ago
• pughlab / VisCap
  VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…
  ☆22Updated 5 years ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆24Updated 9 years ago
• slzhao / QC3
  QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.
  ☆32Updated 8 years ago
• churchill-lab / g2gtools
  Personal diploid genome creation and coordinate conversion
  ☆26Updated last month
• slowkow / picardmetrics
  Run Picard on BAM files and collate 90 metrics into one file.
  ☆41Updated 7 years ago
• Yandell-Lab / taxonomer_0.5
  full taxonomer cython repository
  ☆22Updated 5 years ago
• ChristopherWilks / snaptron
  fast webservices based query tool for large sets of genomic features
  ☆25Updated last month
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 6 years ago
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆47Updated 2 months ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated 8 months ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• pachterlab / kallisto_paper_analysis
  Analysis from kallisto paper
  ☆32Updated 9 years ago
• imbforge / NGSpipe2go
  a set of NGS pipelines
  ☆24Updated this week