User: MSM55

gravatar for MSM55
MSM5570
Reputation:
70
Status:
Trusted
Location:
Israel
Last seen:
1 week ago
Joined:
1 year, 7 months ago
Email:
s***********@gmail.com

Posts by MSM55

<prev • 22 results • page 2 of 3 • next >
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Comment: C: using parallel program
... Paste out-put of `cat fna.ls` ...
written 6 months ago by MSM5570
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Forum: unable to login via github
... Hi I am still unable to login via github. Is the problem already resolved for others? ...
login github forum written 6 months ago by MSM5570 • updated 6 months ago by Vijay Lakhujani3.0k
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Comment: C: Universal illumina highseq adapters
... You can see the following link, might be helpful ! **link**: https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/experiment-design/illumina-adapter-sequences-1000000002694-05.pdf ...
written 6 months ago by MSM5570
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Answer: A: bwa for multiple fastq files
... Do you men to say, you want to do mapping of different sample against your reference genome ? You can use following script for mapping multiple sample using bwa. (Note: save the below script in .sh format (say "mapping.sh") and make sure that are no other fastq file rather then your sample should b ...
written 7 months ago by MSM5570
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Comment: C: Stringtie error with gtf file
... It seems that the header of reference fasta file and naming used in gtf/gff (1st column ) is not matching. Have you downloaded reference fasta & gtf/gff file from same DB and is it of similar version? ...
written 8 months ago by MSM5570
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Comment: C: Fungal NGS data
... You can run [Standalone BLAST][1] against Silva DB to see what kind of bacterial and fungal community in your samples. To find percentage of bacterial and fungal ratio and whole community identification you can use [QIIME][2] pipeline [1]: https://www.ncbi.nlm.nih.gov/books/NBK52637/ [2]: ht ...
written 8 months ago by MSM5570
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Comment: C: extracting a column by grepping particular rows
... Dear vinayjrao, Can you please upload the part of file and share link with me. ...
written 9 months ago by MSM5570
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Comment: C: extracting a column by grepping particular rows
... You can also try following command awk '{print $1 }' file_a | grep --file - file_b | awk '{print $1"\t"$NF}' ...
written 9 months ago by MSM5570
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Answer: A: Test set for WGS analysis pipeline
... There are lot of publicly available data-set on [NCBI-SRA][1] [1]: http://www.ncbi.nlm.nih.gov/sra/?term=WGS ...
written 9 months ago by MSM5570
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Answer: A: Bowtie2 aligner not generating .sam file.
... There is small mistake in your command, you should use "-S" instead of "-s". ...
written 9 months ago by MSM5570

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