User: xzpgocxx

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xzpgocxx0
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Posts by xzpgocxx

<prev • 15 results • page 1 of 2 • next >
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How to identify a species is autopolyploid or allopolyploid by high-throughput sequencing?
... Hi, I want to begin a genome project and firstly I need to know whether its an autopolyploid or allopolyploid. The [ploidyNGS](https://github.com/diriano/ploidyNGS) can be used for exploring ploidy levels from NGS data, but not for identity autopolyploid or allopolyploid. So, Is there some way ca ...
genome assembly next-gen sequencing written 7 months ago by xzpgocxx0 • updated 7 months ago by Vitis2.2k
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How to get the Expansions and Contractions groups ID in CAFE resultes
... Dear, I have used the python scripts `cafetutorial_report_analysis.py` to summary CAFE output and get the `pub`, `node`, `fams` and `anc` files based on the Tutorial ([CAFE: Computational Analysis of gene Family Evolution](http://evomicsorg.wpengine.netdna-cdn.com/wp-content/uploads/2016/06/cafe_tu ...
genome cafe gene written 9 months ago by xzpgocxx0 • updated 9 months ago by Ben Fulton110
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Comment: C: Bionano assembly genome have too much N
... Actually, I have an email to Bionano support, but the reply is confusing. > It might not be clear why i referred you to the xml as this contains descriptions that might help you to improve as all parameters are described there. How ever bionano has put a lot of effort in getting the parameter ...
written 13 months ago by xzpgocxx0
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Bionano assembly genome have too much N
... Hi, I want to assemble my study genome use PacBio long sequence and Bionano with Hybrid-Scaffold way. Firstly, I assemble the contigs use PacBio long sequence and the resulted have only 0.1% N. Then, I assemble the scaffolds use Bionano data (Direct Label and Stain (DLS) chemistry ) as the sugg ...
genome assembly sequencing written 13 months ago by xzpgocxx0
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short sequence alignment to short sequence
... Hi, I have many short sequences (60bp) and want to alignment to the short reference sequence (also is 60bp) to get the different alignment types. I have to try blast to do this work and output m8 format to get the mismatches and gap value. But It's not enough and I'm interested abundant information ...
sequence alignment written 15 months ago by xzpgocxx0
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Statistical the DNA mutation types
... Hi, I want to statistical the mutation types based on sequence alignment. Besides, I'm only interested in the mutation present in the red frame[1] (The first sequence is the reference sequence). I have a huge amount of fasta sequences and cannot be count by the manual. So, is there any software o ...
sequence alignment written 15 months ago by xzpgocxx0
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How to assess a genome is appropriate to do BioNano?
... Hi, We have DeNovo assemble the genome used PacBio data. Now, we want to improve the N50 through BioNano. My question is how to assess my study genome is appropriate to do the BioNano? Thanks. Best, ...
genome assembly written 15 months ago by xzpgocxx0
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Comment: C: How to calculate the different expression gene used PacBio full-length cDNA seq
... Thanks, It's really the best guide to solve this question. Let me try. ...
written 21 months ago by xzpgocxx0
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Comment: C: BLESS : ERROR: Irregular quality score range 35-75
... bless -read1 3k_R1.rd.clean.fastq -read2 3k_R2.rd.clean.fastq -prefix ../bless/3k_R12.rd.clean -kmerlength 31 ...
written 23 months ago by xzpgocxx0
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Comment: C: BLESS : ERROR: Irregular quality score range 35-75
... Yes, command-line, VERSION: 1.02 ...
written 23 months ago by xzpgocxx0

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