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Search results for c fastq
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fastq
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55 search results found
Seqtk
⭐
1,148
Toolkit for processing sequences in FASTA/Q formats
Wtdbg2
⭐
401
Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
Pyfastx
⭐
211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
Sickle
⭐
166
Windowed Adaptive Trimming for fastq files using quality
Genozip
⭐
144
A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too
Biofast
⭐
132
Benchmarking programming languages/implementations for common tasks in Bioinformatics
Mutscan
⭐
127
Detect and visualize target mutations by scanning FastQ files directly
Fastq Pair
⭐
115
Match up paired end fastq files quickly and efficiently.
Repaq
⭐
110
A fast lossless FASTQ compressor with ultra-high compression ratio
Fastx_toolkit
⭐
109
FASTA/FASTQ pre-processing programs
Readfq
⭐
105
Fast multi-line FASTA/Q reader in several programming languages
Fqtools
⭐
105
An efficient FASTQ manipulation suite
Pandaseq
⭐
91
PAired-eND Assembler for DNA sequences
Genefuse
⭐
86
Gene fusion detection and visualization
Fastq Tools
⭐
86
Small utilities for working with fastq sequence files.
Dna Nn
⭐
51
Model and predict short DNA sequence features with neural networks
Gto
⭐
47
A genomics-proteomics toolkit
Pauvre
⭐
43
Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.
Sabre
⭐
34
Pullseq
⭐
34
Utility program for extracting sequences from a fasta/fastq file
Blast2bam
⭐
33
Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.
Naf
⭐
32
Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences
Sff2fastq
⭐
30
extract 454 Genome Sequencer reads from a SFF file and convert them into a FASTQ formatted output
Fastq_utils
⭐
29
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
Nextsv
⭐
29
Gem3 Mapper
⭐
27
GEM-Mapper v3
Fqgrep
⭐
25
An approximate sequence pattern matcher for FASTQ/FASTA files.
Soap3 Dp
⭐
24
To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be configured to favor speed in trade of accuracy and sensitivity. SOAP3-dp, through leveraging the computational power of both CPU and GPU with optimized algorithms, delivers high speed and sensitivity simultaneously.
Gsufsort
⭐
21
gsufsort: building suffix arrays, LCP-arrays and BWTs for string collections [AMB 2020]
Highperformancengs
⭐
20
hight performance & useful tools for working with fastq and bam files
Defq
⭐
20
Ultra-fast Multi-threaded FASTQ Demultiplexing
Ptrimmer
⭐
17
Used to trim off the primer sequence from mutiplex amplicon sequencing
Mod_bio
⭐
17
apache2 modules for bioinformatics.
Hic Pipeline
⭐
15
Fastool
⭐
14
Simple and quick FastQ and FastA tool for file reading and conversion
Kontaminant
⭐
14
Tool to look for contaminants, with a kmer database.
Amplici
⭐
14
AmpliCI, a model-based algorithm for denoising Illumina amplicon data.
Sensv
⭐
13
A tool to detect structural variant
Batalign
⭐
11
Libngs
⭐
10
The Nifty GNU Sequence Library
Bwa Pssm
⭐
10
A burrows-wheeler transform-based probabilistic short read mapper.
Fastprongs
⭐
9
A tool used to cut adapter / qc / trimming / split / statistics for fastq data, it was developed in C.
Seq_file
⭐
8
Library for Reading Bioinformatic Sequence Data in C
Qbrc Somatic Pipeline
⭐
7
QBRC Somatic Mutation Calling Pipeline
Fastqc
⭐
6
This is an R package for quality control (QC) of short read fastq files -- a work in progress
Umi Analysis
⭐
6
Scripts for processing Illumina sequence data containing unique molecular identifiers (UMI)
Fqzcomp
⭐
6
Fastq compression tool
Pollux
⭐
6
Error correction of second-generation sequencing technologies.
Famas
⭐
6
Yet another fastq massaging program
Xs
⭐
6
A FASTQ read simulator
Slicer
⭐
5
Slice a text file (like FastQ) to smaller files by lines, with gzip supported
Kmerlight
⭐
5
Quack
⭐
5
A FASTQ quality assessment tool
Kvarq
⭐
5
Targeted and Mapping-Free Variant Calling in FastQ Reads of Bacterial Genomes
Simple
⭐
5
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