Moderator: Leszek

gravatar for Leszek
Leszek3.8k
Reputation:
3,800
Status:
Trusted
Location:
IIMCB, Poland
Website:
http://bioinfoexpert.com/
Twitter:
lpryszcz
Scholar ID:
Google Scholar Page
Last seen:
2 weeks ago
Joined:
7 years ago
Email:
l**********@gmail.com

I’m bioinformatician with background in molecular biology and biotechnology fascinated by technological developments. Recently, I’m actively working with Next-Generation Sequencing (NGS) data.

Posts by Leszek

<prev • 297 results • page 1 of 30 • next >
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Comment: C: Looking For Tools Tp Draw Motif Logo
... What's STAMP? I'm trying to plot weblogo from count dictionary ie. `{'A': [3, 7, 0, 2, 1], 'C': [0, 0, 5, 2, 6], 'G': [0, 0, 0, 3, 0], 'T': [4, 0, 2, 0, 0]}` ...
written 14 days ago by Leszek3.8k
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Comment: C: Recommendations For Heterozygous Genome Assembly Software
... you can post your questions regarding redundans / heterozygous genome assembly in https://groups.google.com/forum/#!forum/redundans give more details, what is the species, expected genome size, what kind of libraries / assembler you are usings etc ...
written 7 months ago by Leszek3.8k
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Comment: C: How To Efficiently Parse A Huge Fastq File?
... cat file.fastq | python fastq_id_parser.py file_with_ids.txt > file_with_selected_ids.fastq ...
written 7 months ago by Leszek3.8k
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Comment: C: Recommendations For Heterozygous Genome Assembly Software
... you need to add the path to GapCloser to your system PATH. Have a look how to do it: https://github.com/lpryszcz/redundans/issues/23 ...
written 13 months ago by Leszek3.8k
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Job: A bioinformatics specialist position at IIMCB, Warsaw, Poland
... IIMCB (http://iimcb.gov.pl) is the top-ranked Polish research institute in the field of biology. The institute provides cutting-edge equipment and facilities, Illumina Nextseq500, strong computational cluster, and a fully functional zebrafish facility. IIMCB is committed to provide a supportive and ...
poland bioinformatics ngs job warsaw written 17 months ago by Leszek3.8k
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Comment: C: Prague Summer School - Next-Gen Seq Data Analysis 2016 (13 seats available)
... Slightly cheaper alternative, dedicated especially for young scientists from central Europe (V4 region): https://www.biostars.org/p/196803/ or http://ngschool.eu/ ...
written 18 months ago by Leszek3.8k
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News: Summer School in Bioinformatics & NGS Data Analysis
... I'd like to invite you to [**NGSchool2016: Summer School in Bioinformatics & NGS Data Analysis**][1] that will be held on **August 14-21, 2016 in [Dolný Smokovec, Slovakia][2]** ([High Tatras][3]). The course consists of series of lectures and hands-on workshops, covering various aspects of Co ...
dnaseq news summer shool ngs rnaseq chipseq written 18 months ago by Leszek3.8k
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Comment: C: Recommendations For Heterozygous Genome Assembly Software
... good point. we are involved in very challenging genomes (2-3Gb plants), but unfortunately for these challenging genomes there is no good reference to compare with... ...
written 20 months ago by Leszek3.8k
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Comment: C: Recommendations For Heterozygous Genome Assembly Software
... the gaps can be filled ie using GapCloser, removing most of Ns from the assembly ...
written 20 months ago by Leszek3.8k
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Comment: C: Recommendations For Heterozygous Genome Assembly Software
... Yes, reduction step will remove contigs representing highly similar repeats. but if you have mate pair libraries you will recover these missing regions during scaffolding step. From simulations with *A. thaliana* genome (~25% of which is repeats) I've observed reduction of the assembly to ~80-90% o ...
written 20 months ago by Leszek3.8k

Latest awards to Leszek

Popular Question 12 weeks ago, created a question with more than 1,000 views. For How To Find Stranded Rna-Seq Experiments Data
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Scaffolding: Is This Legit?
Epic Question 3 months ago, created a question with more than 10,000 views. For Plotting Density Of Snps On Chromosomes
Popular Question 3 months ago, created a question with more than 1,000 views. For How To Find Stranded Rna-Seq Experiments Data
Student 3 months ago, asked a question with at least 3 up-votes. For Short Read Aligner - Output To Bam/Sam Only Aligned Reads
Great Question 3 months ago, created a question with more than 5,000 views. For Genbank To Gtf Converter
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Scaffolding: Is This Legit?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Scaffolding: Is This Legit?
Appreciated 6 months ago, created a post with more than 5 votes. For A: Scaffolding: Is This Legit?
Good Answer 6 months ago, created an answer that was upvoted at least 5 times. For A: Phylogenetic Trees
Popular Question 6 months ago, created a question with more than 1,000 views. For How To Find Stranded Rna-Seq Experiments Data
Student 8 months ago, asked a question with at least 3 up-votes. For Precise Ngs Alignment
Good Answer 8 months ago, created an answer that was upvoted at least 5 times. For A: Phylogenetic Trees
Scholar 10 months ago, created an answer that has been accepted. For A: What are the best approaches to evaluate a genome assembly using the 'intrinsic'
Appreciated 12 months ago, created a post with more than 5 votes. For A: Scaffolding: Is This Legit?
Popular Question 12 months ago, created a question with more than 1,000 views. For How To Find Stranded Rna-Seq Experiments Data
Good Answer 13 months ago, created an answer that was upvoted at least 5 times. For A: Phylogenetic Trees
Popular Question 13 months ago, created a question with more than 1,000 views. For How To Find Stranded Rna-Seq Experiments Data
Appreciated 13 months ago, created a post with more than 5 votes. For A: Scaffolding: Is This Legit?
Great Question 14 months ago, created a question with more than 5,000 views. For Plotting Density Of Snps On Chromosomes
Great Question 15 months ago, created a question with more than 5,000 views. For Genbank To Gtf Converter
Popular Question 15 months ago, created a question with more than 1,000 views. For How To Find Stranded Rna-Seq Experiments Data
Great Question 15 months ago, created a question with more than 5,000 views. For Genbank To Gtf Converter

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