User: Sus

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Sus10
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11 months, 2 weeks ago
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Posts by Sus

<prev • 7 results • page 1 of 1 • next >
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Comment: C: Does Illumina Undetermined Fastq files contain barcodes
... The path for the file is `/Data/Intensities/BaseCalls/Alignment/` and is called `DemultiplexSummaryF1L1.txt` (I know the post is 18 month old but it could help someone in the future) ...
written 3 days ago by Sus10
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Comment: C: Difficulty retrieving NCBI taxonomic IDs from multiple accession IDs
... Alternatively if you cannot find your IDs you can look into the files prefixed `dead_` that keep a trace of old ids that either don't exists anymore or have been changed. I had to do something similar a few months ago and I found almost all acc IDs in the files listed here [https://ftp.ncbi.nlm.nih ...
written 18 days ago by Sus10
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Comment: C: 16S rRNA classification pipeline
... Right now I have illumina data targeting V3 & V4 ...
written 3 months ago by Sus10
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16S rRNA classification pipeline
... Hello everyone, I have 16S data and I'm trying to identify what genus/species etc. are in my samples and their relative abundance. It's my first time working with 16S data and I'm also not used to classification, I'm trying to improve what I already did and understand some concepts. As of today, ...
16s classifcation rna-seq written 3 months ago by Sus10 • updated 3 months ago by Kevin610
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Comment: C: Need Bioinformatics Help - Analyzing Unknown Dna Sequence
... Just a quick tip for using `omictools.com`, if you land on the annoying "subscribe for free" page, just use private navigation. ...
written 5 months ago by Sus10
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Trying to get consensus sequence from paired end alignment
... Hello ! I am trying to get a consensus sequence from my BAM file. For the context, I'm working with paired-end reads in fastq format, so far I've done: * Building the BWA index for my reference genome * Alignin with the BWA mem following this command: `bwa mem -t 16 ref.fa R1_1.fq R1_2.fq > al ...
paired-end alignment samtools bwa written 11 months ago by Sus10
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Some explanation about what a paired-end sequencing really means
... Hi ! I'm currently a student and I have a hard time understanding some basics of bioinformatics; I'm currently learning about *alignment*, *filtering*, *variant calling* and such so my question might look silly but here it is anyway. I have some trouble about how you work with paired-end sequencing ...
paired-end alignment written 11 months ago by Sus10 • updated 11 months ago by andrew.j.skelton735.6k

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Popular Question 5 months ago, created a question with more than 1,000 views. For Some explanation about what a paired-end sequencing really means

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