Moderator: genomax

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genomax57k
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Posts by genomax

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Comment: C: Conda on MacOS
... Try `bash ./Miniconda3-latest-MacOSX-x86_64.sh` in the directory where you downloaded the script. Please use `ADD COMMENT/ADD REPLY` when responding to comments to keep threads logically organized. ...
written 10 hours ago by genomax57k
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Comment: C: Convert colorspace fastq to basespace fastq
... Your data may already be in fastq format, if you used `fastq-dump`. Can you show us the output of `head -8 your.fq`? ...
written 20 hours ago by genomax57k
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Comment: C: How can I make a .bed file from my fasta?
... Since the BED formalt minimally requires a `chr` identifier and a `start` and `stop` to create a valid BED record you are not going to be able to use this fasta file. You would need to get that information from the original records. It is unclear what you are planning to do using the file. If you wa ...
written 1 day ago by genomax57k
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Comment: C: How can I make a .bed file from my fasta?
... > I have a fasta file that I made. Was it made *de novo* or it came from the output of some analysis/manipulation you did? It would be useful to know how you got this file. ...
written 1 day ago by genomax57k
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Comment: C: Python Script to Calculate Total Number of genes in 3 ORF
... Hello anasjamshed1994! Questions similar to yours can already be found at: Python Script to Calculate Total Number of genes We have closed your question to allow us to keep similar content in the same thread. If you disagree with this please tell us why in a reply below. We'll b ...
written 1 day ago by genomax57k
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Comment: C: What is an optical map ?
... - Optical mapping technology is described in Bionano Genomics's [page here][1]. - Yes you can use optical mapping to create de novo assemblies (ref link above). - You are able to map over areas that are several hundred megabases long (almost chromosome size) which is currently not possible with P ...
written 1 day ago by genomax57k
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Comment: C: What to do with corrupted lane files
... > Unfortunately 3 files of lane04 are corrupted and cannot be restored. Did the corruption happened locally on your end? Generally sequence providers should keep a backup copy of your data for some time (we do for 3 yrs). You may need to pay for them to restore a copy but have you tried to ask? ...
written 1 day ago by genomax57k
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Comment: C: Trouble de-multiplexing single index paired-end illumina library
... Create a new question. ...
written 2 days ago by genomax57k
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Answer: A: How do I download COG sequence?
... All [COG related data][1] is available at this link. [1]: https://www.ncbi.nlm.nih.gov/COG/ ...
written 2 days ago by genomax57k
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Answer: A: SRA Raw data download on windows
... NCBI makes a windows version of `sratoolkit` available. You can find the [installers here][1]. You can find a handbook about using these utilities [at this link][2]. That said, you are going to find several limitations with trying to do NGS data analysis on windows (unless you have access to a comm ...
written 2 days ago by genomax57k

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