User: zhhxu9

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zhhxu90
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Canada
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3 years, 5 months ago
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3 years, 7 months ago
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Posts by zhhxu9

<prev • 14 results • page 1 of 2 • next >
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Comment: C: Any tool for expand and extract genome sequence from a given start coordinate
... Because I am analysing the ChIP-Seq data. I want to find the consensus motif  bind by transcription factor around peak summit .  However the summit I got is only the start coordinates in .BED format. Here is what I did: Firstly, use excel (idea comes from Bjoern) to get the specific scope around th ...
written 3.5 years ago by zhhxu90
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Comment: C: Any tool for expand and extract genome sequence from a given start coordinate
... Hi, I think I find out a way to solve this problem. Thanks for your advise. Zhenhua ...
written 3.5 years ago by zhhxu90
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Comment: C: Any tool for expand and extract genome sequence from a given start coordinate
... Hi, But I do not have any sequence now. All I have are start coordinates. For example, Chr1: 68029345. And I have thousand of them. What I want is to find the coordinates on a specific genome and extract 100bp genome sequence around the start coordinate (50bp upstream, 50bp downstream). Any suggest ...
written 3.5 years ago by zhhxu90
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Any tool for expand and extract genome sequence from a given start coordinate
... Hello everyone, I have some genome coordinates with only the start site. I want to extract 50bp of the genome sequence of both upstream and down stream from this start coordinate. Anyone happen to know what tool can fulfil this job? Either on Galaxy on not. Thanks a lot. Zhenhua ...
extract genome sequence written 3.5 years ago by zhhxu90 • updated 3.5 years ago by Bjoern Gruening5.0k
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Comment: C: Any tools for separate unpaired reads in paired-end sequencing fastq files?
... Hi Jennifer, When I try to use the workflow, do I have to input the raw data? Because I only have the data which has been trimmed for low quality and adaptor sequence. So I do not have the raw data. Under the first two droplist, there is no blank to be selected. Any idea about this? Thanks. Zhenhu ...
written 3.6 years ago by zhhxu90
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Comment: C: Any tools for separate unpaired reads in paired-end sequencing fastq files?
... Thanks Jennifer, I appreciate your kind help. I will try to use the new tool you provided. ...
written 3.6 years ago by zhhxu90
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Comment: C: Need help with "MACS" tool
... Thanks a lot. ...
written 3.6 years ago by zhhxu90
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Comment: C: How can I merge two single-end mapping data
... Thanks Bjoern, I will take a shot. ...
written 3.6 years ago by zhhxu90
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Any tools for separate unpaired reads in paired-end sequencing fastq files?
... Hi, I would like to know if there is any tool can do the following job? I have some data files in fastq format generating from paired -end sequencing. the reads have been generally trimmed to remove the low quality reads and adaptor contaminations. But the R1 and R2 files do not have equal number ...
paired-end unpaired reads prep qc written 3.6 years ago by zhhxu90 • updated 3.6 years ago by Jennifer Hillman Jackson24k
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How can I merge two single-end mapping data
... Hi, I am analysing my ChIP-Seq data which generated by paired-end sequencing. But due to some experimental issues. It is better to mapping both the R1 and R2 data in single-end way separately. So I would like to know how can I combine two SAM or BAM files into one file and how can I get the mappin ...
chip-seq mapping bowtie single end merge written 3.6 years ago by zhhxu90 • updated 3.6 years ago by Bjoern Gruening5.0k

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