User: pmarijon

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pmarijon110
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pierre_marijon
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Posts by pmarijon

<prev • 16 results • page 1 of 2 • next >
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Comment: C: Want to use fastq-dump to download pacbio data? Read this before
... Hi, Sorry I don't understand your question. ...
written 4 months ago by pmarijon110
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Comment: C: Want to use fastq-dump to download pacbio data? Read this before
... I just run dextract on bax.h5 without any option. dextract *.bax.h5 I didn't made any filter on the raw file. ...
written 4 months ago by pmarijon110
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Comment: C: Want to use fastq-dump to download pacbio data? Read this before
... "You'd be surprised by the incredible story of this simple student when he uses the wrong tools to get reads" ...
written 5 months ago by pmarijon110
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Comment: C: You want use fastq-dump to download pacbio dataset before read that
... Hi WouterDeCoster, Thanks I change the title I hope it's more clear now ? (now this is a question :) ) Pierre ...
written 5 months ago by pmarijon110
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Blog: Want to use fastq-dump to download pacbio data? Read this before
... TL;DR I think not, prefer use dextractor Recently I downloaded the NCTC11131 data set stored at EBI via the fastq-dump tool. I would like to assemble it with miniasm and minimap in order to reproduce results from te HINGE paper. The obtained assembly was very fragmented with 34 contigs while HINGE ...
blog longreads written 5 months ago by pmarijon110 • updated 4 months ago by shengweima60
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Comment: C: Seqan read compressed stream
... And bz2 according to http://docs.seqan.de/seqan/master/group_FileCompressionTags.html#FileCompressionTags%23BgzFile ...
written 9 months ago by pmarijon110
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Comment: C: Seqan read compressed stream
... Is documented > These classes provide an API for accessing sequence files in different file formats, either compressed or uncompressed. Source : https://seqan.readthedocs.io/en/master/Tutorial/InputOutput/SequenceIO.html ...
written 9 months ago by pmarijon110
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Comment: C: Seqan read compressed stream
... I use a std::ifstream to get current position in file during seqan parsing, it's easy. But when I try my code on compressed file, seqan parsing failed. So seqan didn't detect my stream contain compressed data or seqan can't work on compressed stream, but isn't documented. ...
written 9 months ago by pmarijon110
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Comment: C: Seqan read compressed stream
... I want generate a progress bar, the post required an edit. For compress file we can have a good approximation with size of compressed file and the position in compressed file. ...
written 9 months ago by pmarijon110
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Seqan read compressed stream
... Hi, I want read a sequence file (fasta fastq bam, etc), so I read Seqan tutorial. But If I want know my position in file I need use std::ifstream (for generate a progress bar) , it's not a problem, I write this test code: ```c++ #include #include #include int main (int argc, char ** argv) { ...
seqan written 9 months ago by pmarijon110

Latest awards to pmarijon

Student 4 months ago, asked a question with at least 3 up-votes. For What's a good PacBio CLR read simulator?
Appreciated 5 months ago, created a post with more than 5 votes. For Want to use fastq-dump to download pacbio data? Read this before

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