User: gangireddy

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gangireddy160
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Posts by gangireddy

<prev • 36 results • page 1 of 4 • next >
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Comment: C: Merge two data sets
... check [join][1] in bash [1]: https://www.computerhope.com/unix/ujoin.htm ...
written 2.6 years ago by gangireddy160
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Answer: A: Trouble with transcriptome data
... Hi gayachit, This is a naive answer. But here it goes : It will not affect your data if remove a single read. and generally the first few bases of most sequencing reads have poor qualities and they need to be chopped off. so, you can try chopping of first few bases. ...
written 2.8 years ago by gangireddy160
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Answer: C: Retrieving nucleotide sequence based on chromosome location offline
... look at 3rd answer [here][1] [1]: https://www.biostars.org/p/56/ ...
written 3.0 years ago by gangireddy160
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Answer: A: error while using awk script to extract information about intron length from gff
... make intron-length.awk into executable file chmod +x intron-length.awk then run the command as ./intron-length.awk TYPE=CDS Radish_V123_Gene.LFY.gff ...
written 3.0 years ago by gangireddy160
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Comment: C: compare fasta files by sequence
... samtools is not installed. try downloading it from [here][1] and install. [1]: http://www.htslib.org/download/ ...
written 3.1 years ago by gangireddy160
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Comment: C: problem in estimatining BAC size using k-mer method
... we are trying to do a denovo assembly of a chromosome using BAC library. so, if BAC asslemblies are not upto mark then the final assembly might have more problems. the difference of size is around 15 kb. this is what worries me. ...
written 3.5 years ago by gangireddy160
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Comment: C: problem in estimatining BAC size using k-mer method
... The average size of library is 168 kb and the assembled contigs have sizes of 219650 && 234947. I don't think it was run on gel as the sequences also contain e.coli sequences which I have removed mannually. ...
written 3.5 years ago by gangireddy160
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Comment: C: problem in estimatining BAC size using k-mer method
... [image link][1] it is the sequence of *B.mori* BAC [1]: https://postimg.org/image/j3818y6bv/ ...
written 3.5 years ago by gangireddy160
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problem in estimatining BAC size using k-mer method
... Hi people, I am trying to assemble BAC clone sequence from pacbio. The assemble using Celera Assembler and canu are both resulting one contig assembly but with a difference in length of 15kb. so, in order to estimate the target size. I followed the link below: [K-mer analysis and genome size est ...
assembly written 3.5 years ago by gangireddy160 • updated 3.5 years ago by SES8.3k
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Answer: A: compare fasta files by sequence
... I would suggest blasting file2 against file1 and extract sequences sequences with hits from file1. But, it won't be simple one liner. makeblastdb -in file1.fasta -parse_seqids -dbtype nucl && blastn -query file2.fasta -db file1.fasta -outfmt 6 |awk '{print $2}' | sort | uniq | xargs s ...
written 3.6 years ago by gangireddy160

Latest awards to gangireddy

Student 2.2 years ago, asked a question with at least 3 up-votes. For TMM - Normalized FPKM values for RNASeq data ?
Popular Question 2.8 years ago, created a question with more than 1,000 views. For TMM - Normalized FPKM values for RNASeq data ?
Scholar 3.8 years ago, created an answer that has been accepted. For A: awk error, retrieving stuff from primer3 output file

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