Alternatives and similar repositories for fastq_utils

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

• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆63Updated 5 months ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆98Updated last year
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆50Updated 2 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• derijkp / scywalker
  A program for the analysis of single cell nanopore long read data
  ☆19Updated 3 months ago
• refgenie / refgenie
  Reference genome resource manager
  ☆74Updated last year
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆86Updated 7 years ago
• pwwang / vcfstats
  Powerful statistics for VCF files
  ☆72Updated 3 months ago
• smithlabcode / preseq
  Software for predicting library complexity and genome coverage in high-throughput sequencing.
  ☆88Updated last year
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆61Updated 4 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 8 months ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆32Updated 2 years ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆48Updated 2 years ago
• ncbi / BAMscale
  BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …
  ☆72Updated 10 months ago
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆113Updated 4 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 2 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 …
  ☆48Updated this week
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆44Updated this week
• wososa / PSI-Sigma
  PSI-Sigma
  ☆38Updated last year
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 2 weeks ago
• LHentges / LanceOtron
  ☆29Updated last year
• gexijin / shinygo
  ☆33Updated last month
• 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 month
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆50Updated last week
• TrinityCTAT / CTAT-LR-fusion
  fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector
  ☆22Updated 3 weeks ago
• Xinglab / espresso
  ☆63Updated last month
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆82Updated 9 months ago
• eblancoga / seqcode
  Suite of command-line software for high-performance graphical analysis of ChIP-seq/RNA-seq/ATAC-seq data
  ☆19Updated 3 years ago