Alessandro Varani

Results 28 comments of Alessandro Varani

LINES vs LTR content

Why not MGEScan-non-LTR?

esource: invalid source key: RM

same problem here

Using "long-reads" resulted in a lower number of annotated genes

Hi there! Similar issue here! Benchmarking the annotation with BUSCO gave me the following results: TSEBRA (no long reads protocol) C:98.7%[S:92.1%,D:6.6%],F:0.7%,M:0.6%,n:1614 8 Missing BUSCOs (M) TSEBRA (long reads protocol) C:97.1%[S:85.6%,D:11.5%],F:0.9%,M:2.0%,n:1614...

Display LTRs of RT-LTR elements, TIRs in Class II elements, and other Transposable element structural features generated by EDTA package

Hi! Thanks for your answer, That will be fantastic Really looking forward to it !

Enrichment - PCA plots and KO breakdown plots not generated

You must install data.table and ggplot2 in R install.packages('data.table') install.packages('ggplot2') Will work

Enrichment - PCA plots and KO breakdown plots not generated

Hi there, did you installed the last version of enricm (0.5.0) ? Try installing from bioconda conda install -c bioconda enrichm Here I got all plottings properly Hop it will...

polyploid Assembly Overestimation

Hi We have a plant genome showing 9.5Gb of size estimated by flow cytometry. One tool that helped us to understand the level of duplication of each homeologue was the...

new to WGD analysis

Hi there, I'm trying to use the "example.Rscript" to plot the final results and got an error message Error in FUN(X[[i]], ...) : object 'V3' not found Calls: ... ggplot_build.ggplot...

Cannot install using conda

Hi there, The last version of enrichm (v0.5.0) is also available at bioconda channel try this: conda install -c bioconda enrichm

Omni-C

any news on this topic ?