User: nicolasdierckxsens

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Belgium
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1 year, 1 month ago
Joined:
4 years, 2 months ago
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Posts by nicolasdierckxsens

<prev • 9 results • page 1 of 1 • next >
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Comment: C: chloroplast complete Genome assembly
... Hi, Sorry forgot to post the link: https://github.com/ndierckx/NOVOPlasty So it works for Illumina paired end reads derived from whole genome data (no capture DNA) Best not to trim nor filter the reads, use the raw data!! I will upload the tool very soon, but if you mail me through the github, I ...
written 3.2 years ago by nicolasdierckxsens30
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Comment: C: How To Assemble Chloroplast Genome?
... Hi, Sorry forgot to post the link: https://github.com/ndierckx/NOVOPlasty So it works for Illumina paired end reads derived from whole genome data (no capture DNA) Best not to trim nor filter the reads, use the raw data!! I will upload the tool very soon, but if you mail me through the github, I ...
written 3.2 years ago by nicolasdierckxsens30
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Answer: A: De Novo Assembly Of A Bacterial Plasmid
... Hi, I developed a new de novo assembler for plastids and it should assemble the genome in one circular contig. I will upload the assembler in the next few weeks if you would be interested: https://github.com/ndierckx/NOVOPlasty I could already upload a beta version next week, probably some bugs, b ...
written 3.7 years ago by nicolasdierckxsens30
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Answer: A: Crazy coverage in assembly of chloroplast
... Hi, I developed a new assembler for plastids and it should assemble the chloroplast genome in one circular contig. I will upload the assembler in the next few weeks if you would be interested: https://github.com/ndierckx/NOVOPlasty I could already upload a beta version next week, probably some bug ...
written 3.7 years ago by nicolasdierckxsens30
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Comment: C: How To Assemble Chloroplast Genome?
... I will put it online next month, I will send the link when it's done. It works now for paired-end illumina data, but I could add other platforms. Does anyone have an idea what other kind of reads are used for chloroplast assemblies? And what's usually the available coverage? If anyone has experienc ...
written 4.0 years ago by nicolasdierckxsens30
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Comment: C: How To Assemble Chloroplast Genome?
... Hi, sorry didn't see your reply. I am currently adjusting it for whole genome assembly, but I could post the plastids version already. I didnt publish it yet, but will ask when I can put it online.. But it's easy to work with, you can run it on your laptop and don't need any installation ...
written 4.0 years ago by nicolasdierckxsens30
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Comment: C: How To Assemble Chloroplast Genome?
... I am still testing it and have to make some more adjustments, but will try to make it online available as soon as possible. If you send me illumina reads, I could also do it quickly and send the results. I have to test it on different datasets anyway ...
written 4.2 years ago by nicolasdierckxsens30
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Answer: A: How To Assemble Chloroplast Genome?
... I developed a denovo assembler specially for chloroplasts and mitochondria. It can assemble a chloroplast in one contig within one hour from whole genome illumina data. I compared the results with MIRA and MITObim and it seems the quality is higher and it always assembles the whole chloroplast and o ...
written 4.2 years ago by nicolasdierckxsens30
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Answer: A: chloroplast complete Genome assembly
... I developed a denovo assembler specially for chloroplasts and mitochondria. It can assemble a chloroplast in one contig within one hour from whole genome illumina data. I compared the results with MIRA and MITObim and it seems the quality is higher and it always assembles the whole chloroplast and o ...
written 4.2 years ago by nicolasdierckxsens30

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