sheffield-bioinformatics-core / periscope
A tool to quantify sub-genomic RNA (sgRNA) expression in SARS-CoV-2 artic network amplicon nanopore sequencing data.
☆16Updated 2 years ago
Related projects: ⓘ
- **DEFUNCT** dada2-based Nextflow pipeline for multiple amplicon data. See website for up-to-date version☆19Updated 4 years ago
- Deprecated see https://github.com/MHH-RCUG/nf_wochenende : A whole Genome/Metagenome Sequencing Alignment Pipeline in Python3☆37Updated 2 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 5 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆38Updated 4 years ago
- REINDEER REad Index for abuNDancE quERy☆56Updated last month
- Small general purpose library for C and Python with focus on bioinformatics.☆29Updated 2 years ago
- Taxon Information Query - fast, offline querying of NCBI Taxonomy and related data☆51Updated this week
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆39Updated 3 years ago
- NovoGraph: building whole genome graphs from long-read-based de novo assemblies☆44Updated 3 years ago
- WDL workflows for variant calling and assembly using ONT☆28Updated 2 months ago
- Genome-wide reconstruction of complex structural variants☆40Updated 2 years ago
- Automatically calculate phylogenetic trees from bacterial core genes☆19Updated 8 months ago
- Find Unique genomic Regions☆29Updated 2 weeks ago
- A toolkit for annotation of transposable element families from unassembled sequence reads☆31Updated last year
- ☆18Updated last month
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆35Updated 2 years ago
- Output FASTQ summary statistics in JSON format☆29Updated last year
- A method of assessing sequence complexity based on kmer frequencies☆26Updated 6 years ago
- Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.☆54Updated 6 years ago
- Database-Integrated Genome Screening (DIGS) tool. Explore the dark genome using BLAST and a relational database.☆10Updated 3 weeks ago
- MarginPolish: Graph based assembly polishing☆45Updated 3 years ago
- Population-wide Deletion Calling☆34Updated 2 weeks ago
- Fast and scalable nanopore adaptive sampling☆33Updated last year
- Exact Tandem Repeat Finder (not a TRF replacement)☆45Updated 4 years ago
- ☆51Updated 5 years ago
- ☆23Updated this week
- Pipeline for structural variant image curation and analysis.☆48Updated 2 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆33Updated 3 years ago
- Graph based multi genome aligner☆45Updated 3 years ago
- ☆28Updated last year