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Generating taxa-wise unifrac distance Matrix using phyloseq

R metagenomics phyloseq unifrac written 6 months ago by mail2steff • 60

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213

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Find UniFrac metric based on grouping

unifrac R phyloseq written 8 months ago by AfinaM • 0

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1.7k

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Phyloseq Weighted Unifrac Ordination Error

unifrac phyloseq pcoa ordination ape written 3.1 years ago by mzmd4 • 0 • updated 3.0 years ago by Kevin Blighe ♦ 69k

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1.9k

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Bacterial phylogeny download for a list of species

unifrac metagenomics tree written 3.7 years ago by susan.klein • 0

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1.3k

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UniFrac in R with just the OTU table?

phylogeny R metagenomics unifrac written 3.8 years ago by David • 190

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How to avoid a phylogenetic bias testing a hypothesis on a big set of bacterial genomes

genome unifrac phylogenetics bacteria written 4.8 years ago by khorms • 210 • updated 4.8 years ago by abascalfederico • 1.1k

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Recent Replies

C: NGS : merge fastq by Pierre Lindenbaum ♦ 133k
> so your recommendation is to leave those 592 files separate, do the alignment and merge the...
C: Wig to Bigwig - UCSC software - error in "item ends" by Carlo Yague ♦ 5.5k
Can you post a few lines of your original wig file and of the chrom size file ?
C: Wig to Bigwig - UCSC software - error in "item ends" by Carlo Yague ♦ 5.5k
Hello matteo, You've conveyed urgency in your post, which should be avoided. Biostars, like most...
A: When a duplicated BUSCOs value is too high? Reasons and how to improve it by lieven.sterck ♦ 9.5k
Without knowing the details I would say, no, that's not too high, nor a worrying result. It's ve...
C: xml file conversion in R by Kira • 0
Thank you very much for your help
A: Problem with MAFFT Multiple Sequence Alignment by wook • 0
I recently met up with the same problem (line 2604: XXXX Killed). I found that this is because I ...
C: NGS : merge fastq by quentin54520 • 0
Thanks for your reply I have 592 fastq files (74 individuals * 4 lanes * 2 ). so your recommen...
C: WIG TO BIGWIG - UCSC SOFTWARE - ERROR IN "ITEM ENDS". <URGENT> by matteo.zoia • 0
> I tried but it doesn't work. I run then : ./bedClip -truncate H3K4me1ESCRep1JWH11c.wig ...
C: RNAseq data for Deseq2 from different library by luckysardar171 • 0
Sorry for the mistake, provided the link for the PCA plot
C: Blast Error in Python by cschu181 • 2.5k
The `remote=True` seems out of place since you have a local blast installation.
C: xml file conversion in R by _r_am ♦ 32k
Try `t(do.call(cbind, PatientClinicalList[1:10]))` etc until you can figure out where it breaks. ...
C: xml file conversion in R by Kira • 0
Extremely grateful for your reply. I've tried traceback() and debug(), still I could not locate t...

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