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Search results for c plus plus fastq
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fastq
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70 search results found
Fastp
⭐
1,602
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging.
Bwa Mem2
⭐
645
The next version of bwa-mem
Vsearch
⭐
605
Versatile open-source tool for microbiome analysis
Seqan3
⭐
373
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
Rmats Turbo
⭐
144
Seed
⭐
139
Efficient clustering of next generation sequences
Ngs Bits
⭐
121
Short-read sequencing tools
Assembly Stats
⭐
92
Get assembly statistics from FASTA and FASTQ files
Beetl
⭐
90
BEETL
Adapterremoval
⭐
87
AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
Soapnuke
⭐
85
A Tool for integrated Quality Control and Preprocessing on FASTQ or BAM/CRAM files
Idba
⭐
80
Ratatosk
⭐
76
Hybrid error correction of long reads using colored de Bruijn graphs
Cobs
⭐
58
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
Fastv
⭐
56
An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.
Rattle
⭐
51
Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing
Falco
⭐
50
A C++ drop-in replacement of FastQC to assess the quality of sequence read data
Metacache
⭐
49
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
Raptor
⭐
46
A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
W2rap Contigger
⭐
44
An Illumina PE genome contig assembler, can handle large (17Gbp) complex (hexaploid) genomes.
Pbsim2
⭐
40
PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores
Antonie
⭐
36
Antonie is an integrated, robust, reliable and fast processor of DNA reads
Kseqpp
⭐
34
Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
Paired Tag
⭐
33
Analysis of Paired-Tag datasets
Bamhash
⭐
32
Debgr
⭐
27
deBGR: An Efficient and Near-Exact Representation of the Weighted de Bruijn Graph
Fxtools
⭐
25
FxTools: a comprehensive toolkit for FASTA and FASTQ file manipulation
Fastq Scan
⭐
24
Output FASTQ summary statistics in JSON format
Whisper
⭐
22
Sinvict
⭐
22
SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA
Fastq Multx
⭐
21
Demultiplexes a fastq.
Seqmule
⭐
21
Automated human exome/genome variants detection from FASTQ files
Peat
⭐
20
An ultra fast and accurate paired-end adapter trimmer that needs no a priori adapter sequences.
Isaac2
⭐
20
Aligner for sequencing data
Isaac3
⭐
18
Aligner for sequencing data
Fastquick
⭐
18
Ultra Fast NGS Data QC Tool
Fasql
⭐
18
DuckDB Extension for reading and writing FASTA and FASTQ Files
Faucet
⭐
16
This is the codebase for Faucet, described in our manuscript: https://academic.oup.com/bioinformatics/article/34 by Roye Rozov, Gil Goldshlager, Eran Halperin, and Ron Shamir
Pheniqs
⭐
16
Fast and accurate sequence demultiplexing
Karp
⭐
16
Accurate and fast taxonomic classification using pseudoaligning
Rabbitmash
⭐
16
RabbitMash: an efficient highly optimized implementation of Mash.
Orcom
⭐
15
Overlapping Reads COmpression with Minimizers
Mango
⭐
14
chia pet analysis software
Quartz
⭐
14
Scalce
⭐
14
FASTQ compression via boosting Sequence Compression Algorithms using Locally Consistent Encoding
Karect
⭐
14
KAUST Assembly Read Error Correction Tool
Fastore
⭐
13
FaStore - high-performance FASTQ files compressor
Isaac4
⭐
13
Isaac aligner version 4
Commet
⭐
13
Comparing and combining multiple metagenomic datasets
Steak
⭐
12
Specific Transposable Element Aligner (HERV-K)
Bam2fastq
⭐
12
Simple convertor from bam to FASTQ
Harc
⭐
12
Fastq compression
Straitrazor
⭐
11
Lfqc
⭐
10
LFQC: Fastq Compression Algorithm
Bioio
⭐
9
Lightweight C++ library for reading FASTA and FASTQ files.
Biocpp Io
⭐
8
BioC++ Input/Output library
Sparseassembler
⭐
8
A sparse k-mer graph based, memory-efficient genome assembler.
Slimfastq
⭐
7
Fast, efficient, lossless compression of fastq files
Idemuxcpp
⭐
7
iDemux is an all-in-one command line tool that can be used for both demultiplexing and error correction of FASTQ files. It enables demultiplexing of i1 inline barcodes of Lexogen’s QuantSeq-Pool as well as demultiplexing of i7 and/or i5 indices of any other RNA-Seq library prep. iDemux can also be used for superior error correction of RNA-Seq libraries generated with Lexogen’s UDI 12 nt Unique Dual Indices. This C++ version is faster than the Python version but requires a certain proficiency in
Fastx_read_count
⭐
7
Tiny program to count reads in FASTA/FASTQ files
Lcqs
⭐
6
Robust and Efficient Lossless Compression of Quality Scores in FASTQ Files with Random Access Decompression Functionality
Assembltrie
⭐
6
Sdm
⭐
6
Fast tool for sequence related tasks
Kseq_cpp
⭐
6
c++ re-implementation of kseq.h from klib
Quaff
⭐
5
FASTA/FASTQ alignment
Fxtract
⭐
5
Extract sequences from a fastx file given a subsequence or identifier
Re Pair
⭐
5
Program to re-do the pairing of fastq reads. This program is modified from http://code.google.com/p/ngopt/source/browse/trunk
Diversitysampling
⭐
5
Rdxon
⭐
5
Reference-free FASTQ filter for rare germline and somatic variants
Cypiripi
⭐
5
A tool for finding out the CYP2D6/CYP2D7 genotypes in the HTS reads
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