Alternatives and similar repositories for htsinfer

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

• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆23Updated 4 months ago
• ruolin / strawberry
  A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)
  ☆24Updated 4 years ago
• COMBINE-lab / shoal
  Improved multi-sample transcript abundance estimates using adaptive priors
  ☆20Updated 7 years ago
• sigven / cacao
  Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer
  ☆21Updated 4 years ago
• seandavi / SRAdbV2
  R Interface to the NCBI SRA metadata
  ☆23Updated 6 years ago
• rhshah / iAnnotateSV
  iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…
  ☆16Updated 2 months ago
• multimeric / TidyMultiqc
  Converts 'MultiQC' Reports into Tidy Data Frames
  ☆18Updated last year
• uclahs-cds / tool-NFTest
  CLI to automate Nextflow pipeline testing
  ☆12Updated 3 weeks ago
• HurlesGroupSanger / DeNovoWEST
  ☆23Updated 2 months ago
• jbelyeu / unfazed
  Unfazed by genomic variant phasing
  ☆27Updated last year
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated 2 years ago
• gzhmat / ShinyCNV
  a Shiny/R application to view and annotate copy number variations
  ☆28Updated 2 years ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last week
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆28Updated last year
• mskcc / facets2n
  Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing using unmatched normal sample(s) for log ra…
  ☆12Updated 2 years ago
• beroukhim-lab / ascets
  This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…
  ☆18Updated last year
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 6 years ago
• lamortenera / bamsignals
  R package to quickly obtain count vectors from indexed bam files
  ☆15Updated 5 months ago
• smped / ngsReports
  ☆23Updated last week
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 8 months ago
• ma-compbio / Weaver
  Allele-Specific Quantification of Structural Variations in Cancer Genomes
  ☆18Updated 6 years ago
• sigven / pharmOncoX
  Targeted and non-targeted anticancer drugs and drug regimens
  ☆29Updated last week
• jamesware / alleleFrequencyApp
  Allele frequency filter app
  ☆14Updated 3 years ago
• alevar / tiebrush
  Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)
  ☆17Updated last month
• beroukhim-lab / BISCUT-py3
  ☆12Updated last year
• mskilab-org / pgv
  Pan gGnome Viewer
  ☆10Updated 4 months ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• favorov / stereogene
  ☆14Updated 2 months ago
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 7 years ago
• Oshlack / Slinker
  Slinker offers a succinct and complementary method to visualise RNA-Seq data through superTranscripts.
  ☆19Updated 3 years ago