indraniel / fqgrepLinks
An approximate sequence pattern matcher for FASTQ/FASTA files.
☆31Updated 9 years ago
Alternatives and similar repositories for fqgrep
Users that are interested in fqgrep are comparing it to the libraries listed below
Sorting:
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Updated 6 years ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆52Updated 4 years ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- Code for nanopore paper☆33Updated 10 years ago
- Whole Exome/Whole Genome Sequencing alignment pipeline☆28Updated last year
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆67Updated 2 years ago
- Visualise interstrain recombination from environmental samples.☆26Updated 6 years ago
- Public Health England SNP calling pipeline.☆37Updated 7 years ago
- simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.☆44Updated 2 years ago
- ☆18Updated 8 years ago
- Convert, explore, and manipulate GFF and GTF files (used in bioinformatics) using a sqlite-based approach☆36Updated 14 years ago
- FAST: Fast Analysis of Sequences Toolbox☆31Updated 5 years ago
- full taxonomer cython repository☆22Updated 5 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Updated 7 years ago
- Preprocessing paired-end reads produced with experiment-specific protocols☆32Updated 7 years ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Updated 6 years ago
- Using kallisto for metagenomic analysis☆49Updated 8 years ago
- reference free variant assembly☆34Updated 2 years ago
- Utility program for extracting sequences from a fasta/fastq file☆35Updated 9 months ago
- Hitting associations with k-mers☆44Updated 3 years ago
- a wee tool for random access into BGZF files.☆85Updated 7 years ago
- Python CLI for alignment-free genomics.☆12Updated last week
- Reference-free variant discovery in large eukaryotic genomes☆41Updated 4 years ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆44Updated 3 months ago
- Merge transcriptome assemblies☆31Updated 9 years ago
- This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion☆21Updated 4 years ago
- Tools for bam file processing☆55Updated 10 years ago
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆58Updated 8 years ago
- Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.☆38Updated 2 years ago
- Genome-wide reconstruction of complex structural variants☆39Updated 3 years ago