ala98412

Are there any changes in Module 1 between versions 2.9.0 and 2.9.9?

3

Hi there, I have 3757 total unique candidates. After Module 1, 2727 clean candidates remained in **ver2.9.0**, and 3757 clean candidates remained in **ver2.9.9**. I am wondering if there are...

Hi there, I have a genome which is expected to have ~860Mb, this result is using genome size estimation tool and also obtain from flye. However, I try both -k=16...

The taxon id was classified as 1

1

Hello, I'm currently working with kraken2 using a dataset downloaded from NCBI (ERR4082713). I've noticed that there's a read classified as taxid 1 in both the fastq_1 and fastq_2 files....

Missing lot of databases

8

* pharokka version: 1.2.0 * Python version: Python 3.8.18 * Operating System: Ubuntu 18.04.6 Hi, I installed pharokka by the command ``` conda install mamba mamba install -c bioconda pharokka...

Failed to execute in braker.pl line 2343

7

Hi there, I got the following error message ``` # Thu May 23 06:25:52 2024:Both protein and RNA-Seq data in input detected. BRAKER will be executed in ETP mode (BRAKER3)....

How to correctly interpret the output of calcDivergenceFromAlign.pl?

1

Hi, I am using _calcDivergenceFromAlign.pl_ and _createRepeatLandscape.pl_ to plot the repeat landscape, but I've encountered some difficulties.  This is the repeat landscape plotted by the script createRepeatLandscape.pl. The repeat...

TSDs are not identical

3

Hi, I am trying to determine the insertion target site of my LTR/Gypsy elements. Using **10:22687853..22691116_INT** as an example, I assume that: scaffold name = 10 start_position = 22687853 end_position...

All avg_dxy in pixy_dxy.txt is NA

5

Hi there, I am using pixy to calculate dxy. However, all of the **avg_dxy** is NA. I believe that I may prepared my file incorrectly. Please forgive me if my...