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Forum: Bioinformatics 01-18-2017, 08:08 PM
Replies: 1
Views: 1,933
Posted By Persistent LABS
24 Hours to go!! Register for the Free Webinar,...

24 Hours to go!! Register for the Free Webinar, if not already done so!
Forum: Bioinformatics 01-16-2017, 12:24 AM
Replies: 1
Views: 1,310
Posted By Persistent LABS
Challenges in SKIN Cancer data analysis

Skin Cancer is one of the most common cancers and close to 4 million cases occur globally each year. According to Skin Cancer Foundation...
Forum: Bioinformatics 01-15-2017, 11:29 PM
Replies: 1
Views: 1,933
Posted By Persistent LABS
Webinar: Sequence alignment: the central step in reference based NGS data analysis

Greetings from Persistent LABS !!

Join us for the third webinar of our series on "Sequence alignment: the central step in reference based Next Generation Sequencing data analysis" on Friday,...
Forum: Bioinformatics 12-04-2016, 09:19 PM
Replies: 0
Views: 893
Posted By Persistent LABS
Webinar: Detailed understanding of NGS quality control and file formats

Greetings from Persistent LABS !!

Join us for the second webinar of our series on "Detailed understanding of NGS quality control and file formats" on Thursday, December 15, 2016 at 11:30 AM IST...
Forum: Bioinformatics 12-02-2016, 05:35 AM
Replies: 1
Views: 1,493
Posted By Persistent LABS
Join us for the second webinar of our series on...

Join us for the second webinar of our series on "Detailed understanding of NGS quality control and file formats" on Thursday, December 15 , 2016 at 11:30 AM (IST); 6:00 AM (GMT) and 8:00 PM (IST);...
Forum: Bioinformatics 11-04-2016, 01:00 AM
Replies: 1
Views: 1,493
Posted By Persistent LABS
Webinar Series: Diving Deep into Next Generation Sequencing (NGS) Data Analysis

Join us for the first webinar of our series on "Addressing Challenges in NGS Data Analysis" on Thursday, November 10, 2016 at 11:30 AM IST (GMT 6 AM) and 8:00 PM IST (GMT 2:30 PM).

NGS has become...
Forum: Bioinformatics 10-28-2016, 05:30 AM
Replies: 0
Views: 969
Posted By Persistent LABS
Webinar Series: Diving Deep into Next Generation Sequencing (NGS) Data Analysis

Join us for the first webinar of our series on "Addressing Challenges in NGS Data Analysis" on Thursday, November 10, 2016 at 11:30 AM IST (GMT 6 AM) and 8:00 PM IST (GMT 2:30 PM).

NGS has become...
Forum: RNA Sequencing 10-08-2016, 12:38 AM
Replies: 3
Views: 1,576
Posted By Persistent LABS
The error message suggests that your countData...

The error message suggests that your countData table has NA values. To confirm it, fanli has suggested to share the output of the two commands. Please share the output.
Forum: Bioinformatics 10-07-2016, 11:53 PM
Replies: 10
Views: 2,445
Posted By Persistent LABS
The sort example has sorted your data...

The sort example has sorted your data alphabetically. If you try to sort your qual file, I think you will get the same order of headers.
Forum: Bioinformatics 10-06-2016, 09:29 PM
Replies: 10
Views: 2,445
Posted By Persistent LABS
I guess sort on linux will work. cat...

I guess sort on linux will work.
cat file.fasta|paste - -|sort|sed 's/\t/\n/g'
Try this.
Forum: Bioinformatics 10-06-2016, 08:01 AM
Replies: 4
Views: 1,326
Posted By Persistent LABS
Longer the reads, better will be the assembly....

Longer the reads, better will be the assembly. But of course you will be loosing some reads with high length cutoff. Important point is how much you are loosing. For example, if you are loosing only...
Forum: RNA Sequencing 10-06-2016, 02:47 AM
Replies: 3
Views: 1,958
Posted By Persistent LABS
Hi scifiction, If you are comfortable in R, you...

Hi scifiction,
If you are comfortable in R, you can use DESeq2 package and perform differential expression analysis. In that case, this link might help you:...
Forum: RNA Sequencing 10-06-2016, 12:33 AM
Replies: 5
Views: 1,434
Posted By Persistent LABS
Hi liumangmang, Your alignment summary looks...

Hi liumangmang,
Your alignment summary looks good. There is a similar post here: http://seqanswers.com/forums/showthread.php?t=29769
You can refer this.
Forum: Bioinformatics 10-05-2016, 11:25 PM
Replies: 4
Views: 1,326
Posted By Persistent LABS
Hi SDPA_Pet, The length cutoff will depend upon...

Hi SDPA_Pet,
The length cutoff will depend upon how much you gain while aligning the reads to genome [if your experiment is not a denovo assembly]. Smaller read lengths will increase the chance of...
Forum: RNA Sequencing 10-05-2016, 09:39 PM
Replies: 1
Views: 1,938
Posted By Persistent LABS
Hi Biol, If you want to analyze your data using...

Hi Biol,
If you want to analyze your data using the pipeline HTSeq->DESeq2, you will require GTF file, and in your case probably you can write a script to create one based upon the alignment of...
Forum: RNA Sequencing 10-02-2016, 08:02 AM
Replies: 7
Views: 1,418
Posted By Persistent LABS
Simon Andrews has talked about the possible types...

Simon Andrews has talked about the possible types of errors introduced during sequencing that might cause the tile plot to appear abnormal.
Here is the link which might help you to understand your...
Forum: RNA Sequencing 09-27-2016, 08:57 PM
Replies: 7
Views: 1,418
Posted By Persistent LABS
Hi buthercup_ch, The FastQC reports suggest...

Hi buthercup_ch,
The FastQC reports suggest that overall quality of reads are okay, and there are no known adapter/contaminants. Since re-sequencing will cost you extra, I would suggest to give a...
Forum: Vendor Forum 09-27-2016, 05:31 AM
Replies: 2
Views: 3,139
Posted By Persistent LABS
SanGeniX Launched

Hello everyone,
We have recently launched our product SanGeniX for the research community for free. Currently we are supporting analysis of DNA-Seq data for variant detection, RNA-Seq data for...
Forum: Vendor Forum 04-28-2016, 02:43 AM
Replies: 2
Views: 3,139
Posted By Persistent LABS
Analyze & Visualize your NGS Data with "SanGenix" by Persistent LABS.

Persistent LABS provides one stop solution 'SanGenix' to simplify complex NGS data analysis hurdles for applications in Plant Genomics, Animal Genomics, Diagnostics and Medicine and Microbial...
Forum: Introductions 04-27-2016, 10:03 PM
Replies: 0
Views: 738
Posted By Persistent LABS
Smile Hello to everyone

Glad to join this forum and look forward to share and learn many new things in the field of Life Sciences, Genomics and other related scientific topics. :)
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