Results for "toolkit"
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snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-seq* scRNA-seq Hi-C Whole Genome Bisulfite Seq/WGBS (*Also available in "allele-specific" mode) snakePipes can be installed via ...Tags: snakepipes, toolkit, snakemake, python, analysis, NGS
1806 days ago
- The Environment for Tree Exploration (ETE) is a Python programming toolkit that assists in the recontruction, manipulation, analysis and visualization of phylogenetic trees (although clustering trees or any other tree-like data structure are also supported). Other tools https://github.com/shenw...
Tags: Environment, Tree, Exploration, ETE, Python, toolkit, recontruction, manipulation, analysis, visualization, phylogenetic, trees
1625 days ago
- dockr 0.8.6 is now available on CRAN. dockr is a minimal toolkit to build a lightweight Docker container image for your R package, in which the package itself is available. The Docker image seeks to mirror your R session as close as possible with respect to R specific dependencies. Both dependenc...
Tags: dockr, R, CRAN, toolkit, build, lightweight, Docker
1598 days ago
MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization
MitoZ is a Python3-based toolkit which aims to automatically filter pair-end raw data (fastq files), assemble genome, search for mitogenome sequences from the genome assembly result, annotate mitogenome (genbank file as result), and mitogenome visualization. MitoZ is available from https://g...Tags: MitoZ, toolkit, animal, mitochondrial, genome, assembly, annotation, visualization, ngs, sequencing
1567 days ago
BlobToolKit: A toolkit for genome assembly QC
Filtering raw genomic datasets is essential to avoid chimeric assemblies and to increase the validity of sequence-based biological inference. BlobToolKit extends the BlobTools1/Blobology2 approach to simplify interactive and reproducible filtering. BlobToolKit is comprised of four component...Tags: BlobToolKit, toolkit, genome, assembly, QC
1539 days ago
ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis
ProteoClade is a Python library for taxonomic-based annotation and quantification of bottom-up proteomics data. It is designed to be user-friendly, and has been optimized for speed and storage requirements. ProteoClade helps you analyze two general categories of experiments: Targeted D...Tags: ProteoClade, taxonomic, toolkit, multi-species, metaproteomic, analysis
1512 days ago
PaReBrick: PArallel REarrangements and BReaks identification toolkit
PaReBrick. The tool takes a collection of strains represented as a sequence of oriented synteny blocks and a phylogenetic tree as input data. It identifies rearrangements, tests them for consistency with a tree, and sorts the events by their parallelism score. The tool provides diagrams of the ne...Tags: PaReBrick, Parallel, Rearrangements, Breaks, identification, toolkit
943 days ago
MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization
MitoZ, consisting of independent modules of de novo assembly, findMitoScaf (find Mitochondrial Scaffolds), annotation and visualization, that can generate mitogenome assembly together with annotation and visualization results from HTS raw reads. https://academic.oup.com/nar/article/47/11/e63/537...Tags: MitoZ, toolkit, animal, mitochondrial, genome, assembly, annotation, visualization
890 days ago
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