agordon / fastx_toolkit
FASTA/FASTQ pre-processing programs
☆174Updated 2 years ago
Alternatives and similar repositories for fastx_toolkit:
Users that are interested in fastx_toolkit are comparing it to the libraries listed below
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆155Updated last year
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆208Updated 6 months ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆132Updated 3 years ago
- An efficient FASTQ manipulation suite☆138Updated 4 years ago
- Read trimming tool for Illumina NGS data.☆130Updated 9 years ago
- VarDict☆191Updated last year
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆200Updated 2 months ago
- BEDOPS: high-performance genomic feature operations☆307Updated 11 months ago
- Windowed Adaptive Trimming for fastq files using quality☆218Updated 7 years ago
- a lightweight bam file depth statistical tool☆148Updated 4 months ago
- Fast genome analysis from unassembled short reads☆274Updated 9 months ago
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆215Updated 3 years ago
- 3D de novo assembly (3D DNA) pipeline☆207Updated last year
- ☆261Updated last month
- A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …☆193Updated 3 weeks ago
- SV detection from paired end reads mapping☆117Updated 5 years ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆138Updated last year
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆217Updated 5 months ago
- Tool for stripping adaptors and/or merging paired reads with overlap into single reads.☆142Updated 8 years ago
- Program for aligning DNA sequences, a pairwise aligner.☆206Updated last month
- RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.☆239Updated 2 months ago
- structural variant calling and genotyping with existing tools, but, smoothly.☆241Updated 7 months ago
- 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…☆295Updated 10 months ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆172Updated 3 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆245Updated last year
- Structural variation and indel detection by local assembly☆240Updated 2 months ago
- Genome browser and variant annotation☆289Updated this week
- Whole Genome Simulator for Next-Generation Sequencing☆96Updated last month
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆201Updated this week
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆195Updated 5 months ago