User: trisha

gravatar for trisha
trisha10
Reputation:
10
Status:
New User
Location:
India
Last seen:
6 months ago
Joined:
2 years, 7 months ago
Email:
t***********@gmail.com

Posts by trisha

<prev • 9 results • page 1 of 1 • next >
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Comment: C: how to find the amplified region from aln.bam file
... I have not received the information about amplified region, that is in deed the task to find the amplified region. ...
written 6 months ago by trisha10
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how to find the amplified region from aln.bam file
... I have received mi-seq data for targeted genomic region of human. I need to find the amplified region. How could I find from my .bam file or .bed file which region is the amplified region (as position in .bam file). Also from the coverage studies I found that some reads have very less coverage where ...
amplicon paired end mi-seq written 6 months ago by trisha10
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Comment: C: extract the aligned read names and their reference fasta sequence name
... Thank you so much, I really apologies for this stupid blunder. This works perfectly well. ...
written 9 months ago by trisha10
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Comment: C: extract the aligned read names and their reference fasta sequence name
... Thank you for your suggestion, However I get the following error. may be I did not understand correctly. samtools view sorted_trimmed_corrected_merged.bam | cut -f1,3 Unless fasta identifier != "fasta sequence name" cut: Unless: No such file or directory cut: fasta: No such file or directory cut: ...
written 9 months ago by trisha10
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Comment: C: extract the aligned read names and their reference fasta sequence name
... Thank you, this gives me the number of the reads mapped to each chromosome, However I would like to know the name of the read corresponding to its mapped chromosome for example from your given samtools indexstats chr1 38193400 19672 0 I would like to know the name of the reads that map ...
written 9 months ago by trisha10
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extract the aligned read names and their reference fasta sequence name
... Its a silly question How to extract list of read names and their corresponding aligned fasta sequence name as table from the reference provided based on alignment.bam file ...
alignment rna-seq written 9 months ago by trisha10
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Comment: C: Extracting root annotation for each GO IDs
... Thanks... I used the MySQL and did the work. ...
written 2.1 years ago by trisha10
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Answer: A: Extracting root annotation for each GO IDs
... Would you please guide me how can I extract from there? Just some hints... many thanks ...
written 2.1 years ago by trisha10
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Extracting root annotation for each GO IDs
... I have a list of gene ontology IDs (As GO:0016021, GO:0005515), and I would like to group them based on their root annotation to Biological process, Cellular component or Molecular function. The desired result is GO:0016021 Cellular Component or CC GO:0005515 Molecular Function or MF Is there any ...
gene ontology written 2.1 years ago by trisha10 • updated 2.1 years ago by Guangchuang Yu1.8k

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