Paket: paleomix (1.3.7-3)
Links für paleomix
Debian-Ressourcen:
Quellcode-Paket paleomix herunterladen:
Betreuer:
- Debian Med Packaging Team (QS-Seite, E-Mail-Archiv)
- Andreas Tille (QS-Seite)
- Étienne Mollier (QS-Seite)
Externe Ressourcen:
- Homepage [geogenetics.ku.dk]
Ähnliche Pakete:
pipelines and tools for the processing of ancient and modern HTS data
The PALEOMIX pipelines are a set of pipelines and tools designed to aid the rapid processing of High-Throughput Sequencing (HTS) data: The BAM pipeline processes de-multiplexed reads from one or more samples, through sequence processing and alignment, to generate BAM alignment files useful in downstream analyses; the Phylogenetic pipeline carries out genotyping and phylogenetic inference on BAM alignment files, either produced using the BAM pipeline or generated elsewhere; and the Zonkey pipeline carries out a suite of analyses on low coverage equine alignments, in order to detect the presence of F1-hybrids in archaeological assemblages. In addition, PALEOMIX aids in metagenomic analysis of the extracts.
The pipelines have been designed with ancient DNA (aDNA) in mind, and includes several features especially useful for the analyses of ancient samples, but can all be for the processing of modern samples, in order to ensure consistent data processing.
Andere Pakete mit Bezug zu paleomix
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- dep: adapterremoval
- rapid adapter trimming, identification, and read merging of gene sequences
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- dep: bcftools
- Aufruf und Manipulation genomischer Varianten von VCF/BCF-Dateien
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- dep: bedtools
- Hilfswerkzeugsammlung zum Vergleich genomischer Merkmale
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- dep: bowtie2
- Ultraschnelles und speichersparendes Alignmentprogramm für kurze DNA-Sequenzen
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- dep: bwa
- Burrows-Wheeler Aligner
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- dep: examl
- Exascale Maximum Likelihood (ExaML) code for phylogenetic inference
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- dep: mafft
- Programm für multiples Alignment von Aminosäure- oder Nukleotidsequenzen
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- dep: mapdamage
- tracking and quantifying damage patterns in ancient DNA sequences
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- dep: phylip
- package of programs for inferring phylogenies
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- dep: picard-tools
- Command line tools to manipulate SAM and BAM files
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- dep: python3
- interactive high-level object-oriented language (default python3 version)
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- dep: python3-coloredlogs
- colored terminal output for Python 3's logging module
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- dep: python3-configargparse
- Ersatz für argparse mit Konfigurationsdateien und Umgebungsvariablen (Python 3)
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- dep: python3-pysam
- interface for the SAM/BAM sequence alignment and mapping format (Python 3)
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- dep: python3-ruamel.yaml
- YAML-Analysator/Produzent (Python-3-Modul)
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- dep: python3-setproctitle
- Setproctitle - Python-3-Implementierung
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- dep: r-base-core
- GNU R - System für statistische Berechnungen und Grafik - Kern
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- dep: radiant
- explore hierarchical metagenomic data with zoomable pie charts
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- dep: raxml
- Randomized Axelerated Maximum Likelihood of phylogenetic trees
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- dep: samtools
- processing sequence alignments in SAM, BAM and CRAM formats
paleomix herunterladen
| Architektur | Paketgröße | Größe (installiert) | Dateien |
|---|---|---|---|
| amd64 | 960,8 kB | 2.006,0 kB | [Liste der Dateien] |