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Pawel Krawczyk - Metagenomics and RNA biology
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Pawel Krawczyk

Metagenomics and RNA biology
Polish Academy of Sciences • Institute of Biochemistry and Biophysics • Warsaw • Poland

I am interested in the analysis of all kinds of NGS data, but focused mostly on metagenomics (as it is a subject of my PhD Studies) and RNAseq

Skills and expertise

Fields of interest
  • RNA-seq analysis
  • ChIP-seq analysis
  • Metagenomic sequencing analysis
Languages
  • English
Programming languages
  • Perl
  • Python
  • R
  • Shell (Bash)

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Bioinformatics projects

TOOLS MAINTAINED

PlasFlow

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PlasFlow

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Determines bacterial plasmid sequences in genomic and metagenomic assemblies. PlasFlow is an open source software, based on a deep neural network model that distinguishes plasmids and chromosomes. It…

Fields of interest

RNA-seq analysis
Incorporates tools and workflows for the analysis of environmental DNA (eDNA)…
Identifies high-risk individuals for cancers based on their germline genomic…
Consists of a dimension reduction technique designed for complex data sets with…
ChIP-seq analysis
Conducts RNA-seq read alignment and read counting from raw sequence reads to…
Enables large-scale metagenome and transcriptome reads clustering. SpaRC is an…
Provides several scripts to predict active enhancers and promoters in a cell…
Metagenomic sequencing analysis
Serves for the classification of metagenomics data. Ph-CNN contains a deep…
Provides a read alignment software for whole genome sequencing (WGS). CS-BWAMEM…
Predicts de novo profile generation based on sequence context. SPBuild…