User: cvu

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cvu90
Reputation:
90
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India
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4 days, 2 hours ago
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Posts by cvu

<prev • 57 results • page 1 of 6 • next >
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Comment: C: which tool is used for separating forward and reverse from paired end fastq
... use SRA Toolkit https://www.ncbi.nlm.nih.gov/books/NBK158900/ and use fastq-dump, for example `fastq-dump -I --split-files SRR390728` to split paired end reads. ...
written 9 days ago by cvu90
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Comment: C: Predict Prion like Proteins (PLAAC)
... Thanks for the reply microfuge ...
written 10 days ago by cvu90
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Intronic Variant Filtering
... Hello all, I want to filter variants based on their genomic location. For example RSID rs10863805, this variant is Intronic variant and it is 18 nucleotides away from exon and I want to keep all intronic variants which falls in before or after 100 nucleotides of exon region. > 5'-------INTRON ...
intron snp variantcalling written 10 days ago by cvu90 • updated 9 days ago by Samuel Brady220
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Predict Prion like Proteins (PLAAC)
... Hi All, I'm using PLAAC (http://plaac.wi.mit.edu/) to identify probable prion subsequences in my protein sequences. but I get different LLR scores for same protein sequence, when I give fasta and multifasta files. Output from FASTA file SEQid MW MWstart MWend MWlen LLR LLRstar ...
gene prion protein written 11 days ago by cvu90
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RAD-seq Downstream analysis
... Hello People, I am new to RAD-seq analysis and I've 100 samples of RAD-seq paired end double digest data from single population. I ran ipyrad and have got different output formats (vcf, loci, geno, phy, str etc.). Now I'm not able to generate graphs. I want to do qtl mapping, parsimony analysis, ph ...
rad-seq ipyrad downstream written 5 weeks ago by cvu90
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Comment: C: joining paired end illumina data for metagenomic analysis
... can I put Ns between two reads to link them? it is 2x250 reads, and insert length is approximately 420. ...
written 9 weeks ago by cvu90
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Comment: C: joining paired end illumina data for metagenomic analysis
... thanks a lot genomax. I tried `bbmerge.sh` but got same result. ...
written 9 weeks ago by cvu90
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joining paired end illumina data for metagenomic analysis
... Hello people, I've paired end 16s metagenomic data. I tried to join forward and reverse reads with `join_paired_ends.py` but 50% data was assembled and I'm loosing 50% of my data which comes in `fastqjoin.un1.fastq` and `fastqjoin.un2.fastq`. I think my reads are not overlapping there must be gap b ...
illumina 16s paired end metagenome qiime written 9 weeks ago by cvu90
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Comment: C: htseq read count zero ?
... Thanks a lot Carlo Yague. I changed `-a 5` and number of read count increased. ...
written 9 weeks ago by cvu90
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Comment: C: htseq read count zero ?
... thanks Devon. I have not filtered my Trinity output !! May be that's one of the reasons. ...
written 9 weeks ago by cvu90

Latest awards to cvu

Supporter 10 days ago, voted at least 25 times.
Great Question 29 days ago, created a question with more than 5,000 views. For Creating reference Index using Bowtie2
Popular Question 7 months ago, created a question with more than 1,000 views. For VariantRecalibrator Error message
Popular Question 7 months ago, created a question with more than 1,000 views. For Creating reference Index using Bowtie2
Popular Question 7 months ago, created a question with more than 1,000 views. For Samtools mpileup refrence fasta file input
Popular Question 8 months ago, created a question with more than 1,000 views. For Give hyperlink to pdf table perl
Popular Question 11 months ago, created a question with more than 1,000 views. For Comparing vcf with dbSNP
Great Question 16 months ago, created a question with more than 5,000 views. For Bowtie2 parameters for best alignment
Popular Question 20 months ago, created a question with more than 1,000 views. For Comparing vcf with dbSNP
Popular Question 20 months ago, created a question with more than 1,000 views. For Creating reference Index using Bowtie2
Popular Question 24 months ago, created a question with more than 1,000 views. For Bowtie2 parameters for best alignment
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Creating reference Index using Bowtie2
Popular Question 2.4 years ago, created a question with more than 1,000 views. For Creating reference Index using Bowtie2
Popular Question 2.4 years ago, created a question with more than 1,000 views. For Bowtie2 parameters for best alignment

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