malariagen / pipelines
Pipelines for processing malaria parasite and mosquito genome sequence data.
☆14Updated 5 months ago
Alternatives and similar repositories for pipelines:
Users that are interested in pipelines are comparing it to the libraries listed below
- MIRA sequence assembler☆28Updated 3 months ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 5 years ago
- Structural variant (SV) analysis tools☆36Updated 9 months ago
- ☆27Updated 2 months ago
- A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies☆34Updated 9 months ago
- PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…☆31Updated 3 years ago
- catalog for long-read sequencing tools☆32Updated 2 years ago
- Toolkit for preparing genomes for submission to NCBI☆29Updated 3 years ago
- Find Unique genomic Regions☆29Updated 3 weeks ago
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆18Updated 2 months ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆60Updated 4 years ago
- ☆28Updated 10 months ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- Filter SAM file for soft and hard clipped alignments☆46Updated 10 months ago
- for visual evaluation of read support for structural variation☆52Updated 10 months ago
- This repository hosts a large collection of Nextflow snippets☆57Updated 2 months ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- A collection of modules and sub-workflows for Nextflow☆26Updated last week
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆44Updated 3 months ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆44Updated 2 years ago
- ☆24Updated last month
- Pipeline for structural variant image curation and analysis.☆48Updated 3 years ago
- Hitting associations with k-mers☆45Updated 2 years ago
- SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.☆24Updated last year
- Master of Pores 2☆23Updated 4 months ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆48Updated 5 years ago
- A toolkit for annotation of transposable element families from unassembled sequence reads☆30Updated last year
- Simple utility to concatenate .fastq(.gz) files whilst creating a summary of the sequences.☆36Updated 3 weeks ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- Whole Exome/Whole Genome Sequencing alignment pipeline☆28Updated 7 months ago