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Scaffolding contigs generated by minia

genome assembly denovo_assembly minia scaffolding written 14 months ago by Mostafa • 10 • updated 14 months ago by RamRS ♦ 24k

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Finding fragemented transcriptome

denovo_assembly transcriptome written 2.4 years ago by EVR • 560 • updated 2.4 years ago by Rohit • 1.4k

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Recent Replies

C: Quntify Antibiotic resistance gene abundence by genomax ♦ 74k
> 100.0% Searching input.fastq 0.0% matched But the example you are showing above seems to b...
C: Tools for visualization of taxonomic/gene/COG abundance in samples by allerdrengen55 • 20
So there are basically two things Id like to compare between the samples: 1. Taxonomies. So the ...
C: Gene Coexpression Network Construction by Arindam Ghosh • 200
As ATPoint mentioned you should first look into established packages. They usually have a well ex...
C: Tools for visualization of taxonomic/gene/COG abundance in samples by Amar • 420
Can you expand on what you want to visual/convey? For example do you want to compare the COG dis...
C: HISAT2 Error Building Index by Arindam Ghosh • 200
You got the point right. If the required amount of RAM is unavailable, use [pre-built indexes][1]...
C: How to perform strand-aware (RNA-Seq) mapping using STAR? by benformatics • 1.2k
I was assuming your reference was a standard one (e.g. UCSC/Ensembl) but if you did the assembly ...
C: What suggestive line at manhattan plot usually stands for? by rimgubaev • 140
Thank you! If I understood you correctly it is just a matter of convention without statistical ju...
A: Add metadata based on tree structure by Jack • 30
Thank you for your answers! With the help of the following code I am able to add meta data, that...
C: Gene Coexpression Network Construction by ATpoint ♦ 25k
Hi https://www.biostars.org/u/45415/, you should check the established packages for this such as ...
C: Understanding the annotation tag by Emily_Ensembl ♦ 19k
Annotation of what? What did you query?
C: sra-toolkit and fastq-dump error by ATpoint ♦ 25k
I assume because the old one is somewhere in your `PATH` while the new one isn't. Check `which fa...
A: sra-toolkit and fastq-dump error by chloisf • 0
Hi lakhujanivijay and ATpoint, Thank you two for your answers! I didn't know about sra-explorer...

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