Moderator: lakhujanivijay

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lakhujanivijay5.0k
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Bioinformatics 💻 Programmer | Linux ❤ Lover | Constant ☕ Learner

A passionate bioinformatician interested in developing solutions for analyzing, visualizing and integrating clinical and research data.

Me = ( ¼ Bioinformatician ) + ( ¼ Programmer ) +  ( ½ Biologist )

Let's connect !

 

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ORCID iD iconhttps://orcid.org/0000-0002-6529-0841

Posts by lakhujanivijay

<prev • 917 results • page 2 of 92 • next >
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Answer: A: genome alignment for more than 6000 sequences
... Look at these posts https://www.biostars.org/p/382633/ https://www.biostars.org/p/55961/ ...
written 5 weeks ago by lakhujanivijay5.0k
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Comment: C: Reference genome and samtools reheader option
... This command does not perform replacement within the same bam file rather is spitting binary in std out. Any suggestion? `samtools reheader -i some_header_file_or_sam_file your_alignments.bam` ...
written 5 weeks ago by lakhujanivijay5.0k
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Comment: C: What tool should I use for the identification of DNA transposons?
... https://www.biostars.org/u/23882/ +1 for that ...
written 7 weeks ago by lakhujanivijay5.0k
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Answer: A: What tool should I use for the identification of DNA transposons?
... Try [this][1] tool [1]: http://transposonpsi.sourceforge.net/ ...
written 7 weeks ago by lakhujanivijay5.0k
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Answer: A: volcano plot in R
... Hi https://www.biostars.org/u/63328/ If you look at your tutorial, `fit2` is a dataframe and looks like this: ## Symbol Entrez_Gene_ID Chromosome Cytoband logFC ## ILMN_1704294 CDH3 1001 16 16q22.1c 3.269052 ## ILMN_1813704 KIAA1199 ...
written 7 weeks ago by lakhujanivijay5.0k
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Comment: C: Position in Microbial Bioinformatics for COVID-19 Research and Response
... > To apply, please send your resume to https://imgur.com/a/wt1ETjR is that a typo ? ...
written 7 weeks ago by lakhujanivijay5.0k
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Answer: A: Reference of Whole exome sequecing analysis
... I prefer downloading from [iGenomes](http://igenomes.illumina.com.s3-website-us-east-1.amazonaws.com/README.txt) [This](http://igenomes.illumina.com.s3-website-us-east-1.amazonaws.com/Homo_sapiens/Ensembl/GRCh37/Homo_sapiens_Ensembl_GRCh37.tar.gz) link should have pre-indexed genome files that you ...
written 8 weeks ago by lakhujanivijay5.0k
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Answer: A: FASTA file split
... Priya, you can use [seqkit][1] `seqkit split2 your_fast_file.fa -s 1000 -f` > -s, --by-size int split sequences into multi parts with N sequences [1]: https://bioinf.shenwei.me/seqkit/download/ ...
written 8 weeks ago by lakhujanivijay5.0k
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Answer: A: Batch rename protein fasta headers
... Using [seqkit](https://bioinf.shenwei.me/seqkit/download/) `seqkit replace -p '(.+)' -r 'one_$1' Filename.fasta` ...
written 9 weeks ago by lakhujanivijay5.0k
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Answer: A: Plot per base coverage from regions coverage with R
... You can use [karyoploteR][1] to achieve something like this ![enter image description here][2] [1]: https://bernatgel.github.io/karyoploter_tutorial//Tutorial/PlotCoverage/PlotCoverage.html [2]: https://bernatgel.github.io/karyoploter_tutorial/Tutorial/PlotCoverage/images/Figure1-1.png **S ...
written 9 weeks ago by lakhujanivijay5.0k

Latest awards to lakhujanivijay

Popular Question 10 days ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Appreciated 17 days ago, created a post with more than 5 votes. For A: How to extract unmapped Paired end reads from BWA output sam file
Teacher 28 days ago, created an answer with at least 3 up-votes. For A: How to apply a function to a list and get results as a list in R?
Popular Question 7 weeks ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Popular Question 8 weeks ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: How to apply a function to a list and get results as a list in R?
Scholar 9 weeks ago, created an answer that has been accepted. For A: How do i should proceed with 16S rRNA amplicon sequencing data from Illumina MiS
Scholar 12 weeks ago, created an answer that has been accepted. For A: How do i should proceed with 16S rRNA amplicon sequencing data from Illumina MiS
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: How to apply a function to a list and get results as a list in R?
Appreciated 3 months ago, created a post with more than 5 votes. For A: How to extract unmapped Paired end reads from BWA output sam file
Great Question 4 months ago, created a question with more than 5,000 views. For How to install samtools v.1.2 on Ubuntu 14.0 32 bit?
Popular Question 4 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Popular Question 5 months ago, created a question with more than 1,000 views. For How to install samtools v.1.2 on Ubuntu 14.0 32 bit?
Popular Question 5 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Popular Question 5 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Popular Question 5 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Great Question 5 months ago, created a question with more than 5,000 views. For How to install samtools v.1.2 on Ubuntu 14.0 32 bit?
Popular Question 6 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Scholar 6 months ago, created an answer that has been accepted. For A: How do i should proceed with 16S rRNA amplicon sequencing data from Illumina MiS
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: How to apply a function to a list and get results as a list in R?
Scholar 6 months ago, created an answer that has been accepted. For A: How do i should proceed with 16S rRNA amplicon sequencing data from Illumina MiS
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: How to apply a function to a list and get results as a list in R?
Popular Question 7 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Popular Question 7 months ago, created a question with more than 1,000 views. For How are the variants called by samtools?
Student 7 months ago, asked a question with at least 3 up-votes. For What are some good resources to learn shell script for NGS pipeline development?

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