paired-end

There are 0 repository under paired-end topic.

Gabaldonlab / redundans
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
genome-assembly python pipeline fasta contigs heterozygous polymorphic docker-image mate-pairs paired-end assembled-contigs gap closing scaffolding bioinformatics assembly genomics
Language:C++ 128
kcleal / dysgu
Toolkit for calling structural variants using short or long reads
genomics bioinformatics structural-variation variant-calling paired-end long-read structural variant
Language:Cython 88
cihga39871 / Atria
An accurate and ultra-fast adapter and quality trimming program for Illumina Next-Generation Sequencing (NGS) data.
illumina ngs paired-end quality trim-adapters trimmer trimming
Language:Julia 31
sestaton / Pairfq
Sync paired-end FASTA/Q files and keep singleton reads
fasta fastq paired-end
Language:Perl 18
bioinfologics / Pseudoseq.jl
Fake genomes, fake sequencing, real insights.
dna-sequences genome-assembly dna-sequencing simulation simulator dna-assembly paired-end long-reads linked-reads
Language:Julia 13
OpenGene / pecheck
check paired-end FASTQ data integrity
bioinformatics check consistence fastq identical illumina integrity paired-end pe
Language:C 6
telatin / porfast
⚡pORFast - Paired-end ORF Fast extraction
bioinformatics orf-finder ngs fastq paired-end
Language:Nim 6
Shao-Group / rnabridge-align
rnabridge-align is an efficient tool to bridge paired-end RNA-seq reads
rna-seq paired-end
Language:C++ 5
seqfu
quadram-institute-bioscience / seqfu
Legacy repository (https://telatin.github.io/seqfu2)
bioinformatics fasta fastq paired-end conda-packages
2
alexjisa / TAIFA
TAIFA is a workflow for conducting Whole-Genome Sequencing (WGS) of bacteria
genomics bacteria bioinformatics-pipeline conda data-mining functional-annotation illumina next-generation-sequencing paired-end short-reads whole-genome-sequencing structural-annotation
1
crickbabs / BABS-ATACSeqPE
This pipeline has been superceeded. Please use >>>
atac-seq atacseq bioinformatics bioinformatics-pipeline nextflow paired-end pipeline
Language:Groovy 1
CVUA-RRW / MetaSeqSim
Simulator of metabarcoding sequencing runs - Glorified ART wrapper
metabarcoding sequencing simulated-data illumina paired-end
Language:Python 1
Pinky-cloud224 / snakemake_workflow_rna_seq_data_analysis
conda config cutadapt fastq-files fastqc featurecounts htseq-count jupyter-notebook kallisto multiqc paired-end python3 rna-seq salmon snakemake-workflow tpm
Language:Jupyter Notebook 1
Shians / paired_fastq_split
demultiplex illumina barcode split paired paired-end fastq
Language:Python 1
crickbabs / BABS-MNASeqPE
This pipeline has been superceeded. Please use >>>
bioinformatics bioinformatics-pipeline mnase-seq nextflow nucleosome nucleosome-positioning paired-end pipeline
Language:Groovy 0
gdefazio / SplitFastq
It splits a fastq file containing R1 and R2 reads.
fastq-files paired-end split fastq bioinformatics
Language:C 0
GenomicaMicrob / nextera_cleaner
Script to clean Illumina pair-end sequences produced with the Nextera kit. Bases below Q30, Ns, and Nextera adapters are removed. Bases can also be removed at the beginning and end of each sequence. At the end, clean files can be analyzed with FastQC.
fastqc nextera nextera-adapters paired-end
Language:Shell 0
jalwillcox / Get-STR-Extensions
This script takes advantage of read pairing in bam/cram files to identify the presence of STR extensions.
str simple-tandem-repeats fxn frataxin str-extension ngs-analysis wgs-analysis paired-end-reads paired-end-sequencing paired-end
Language:Shell 0
interleafq
quadram-institute-bioscience / interleafq
📦 Interleave and deinterleave FASTQ files. Streams and gzipped FASTQ files are accepted.
bioinformatics fastq interleaved illumina-sequencing paired-end
Language:Perl