Windowed Adaptive Trimming for fastq files using quality
☆228May 8, 2017Updated 8 years ago
Alternatives and similar repositories for sickle
Users that are interested in sickle are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A 3'-end adapter contaminant trimmer☆96Jan 23, 2018Updated 8 years ago
- Tool for stripping adaptors and/or merging paired reads with overlap into single reads.☆146Oct 4, 2016Updated 9 years ago
- Clustering cONtigs with COverage and ComposiTion☆137Mar 6, 2020Updated 6 years ago
- Cutadapt removes adapter sequences from sequencing reads☆575Mar 17, 2026Updated last week
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆44Jul 6, 2021Updated 4 years ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆47May 27, 2022Updated 3 years ago
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆354Jul 19, 2025Updated 8 months ago
- Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish☆57Jan 26, 2023Updated 3 years ago
- Fast genome-wide functional annotation through orthology assignment☆708Jun 18, 2025Updated 9 months ago
- variant discovery and annotation using GATK and Ensembl☆17Jun 27, 2013Updated 12 years ago
- ☆132Jul 9, 2023Updated 2 years ago
- Tools for bam file processing☆55Apr 20, 2015Updated 10 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Jun 14, 2016Updated 9 years ago
- Accurate quality filtering of metagenomic amplicon sequences☆12Aug 26, 2019Updated 6 years ago
- Tools to process and analyze deep sequencing data.☆752Jul 23, 2025Updated 8 months ago
- C++ API & command-line toolkit for working with BAM data☆429May 18, 2025Updated 10 months ago
- Hagfish - assess an assembly through creative use of coverage plots☆36Aug 9, 2012Updated 13 years ago
- Gordon's Text utils Library☆10Apr 11, 2022Updated 3 years ago
- A tool for Read Multi-Mapper Resolution☆24Feb 15, 2017Updated 9 years ago
- Bacterial phylogenetics in BEAST 2.☆18Mar 30, 2023Updated 2 years ago
- FASTA/FASTQ pre-processing programs☆198Mar 4, 2022Updated 4 years ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆870Mar 11, 2026Updated last week
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Feb 17, 2016Updated 10 years ago
- Ultra-fast and memory-efficient (meta-)genome assembler☆699Oct 28, 2025Updated 4 months ago
- De novo assembly based variant calling pipeline for Illumina short reads☆110Nov 30, 2020Updated 5 years ago
- de novo sequence assembler using string graphs☆243Aug 8, 2019Updated 6 years ago
- BioDSL (pronounced Biodiesel) is a Domain Specific Language for creating bioinformatic analysis workflows.☆16Jul 30, 2018Updated 7 years ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,308Updated this week
- An application to remove PCR duplicates from high throughput sequencing runs.☆11Apr 22, 2018Updated 7 years ago
- Utility program for extracting sequences from a fasta/fastq file☆35Dec 23, 2024Updated last year
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆248Feb 11, 2021Updated 5 years ago
- SPAdes Genome Assembler☆919Mar 17, 2026Updated last week
- FAST: Fast Analysis of Sequences Toolbox☆31Oct 18, 2019Updated 6 years ago
- Assemble large genomes using short reads☆328Mar 11, 2026Updated last week
- de novo targeted gene assembly☆22Apr 16, 2021Updated 4 years ago
- Metagenomic binning suite☆29Sep 30, 2022Updated 3 years ago
- ☆347Mar 4, 2025Updated last year
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆308Mar 18, 2024Updated 2 years ago
- Simple and quick FastQ and FastA tool for file reading and conversion☆17Jul 11, 2014Updated 11 years ago