-
I have a set of nucleotide sequences and I need the pairwise sequence similarity of all vs all.
I understand that one should create a fake_pref and use it to run mmseqs align. Yet, in the document…
-
Hello, I've run into what I'm guessing is an odd little graphical scaling bug. I'm seeing it for bedgraphs in which a lot of data has to be displayed at once. Depending on what 'zoom' level I'm at, I'…
-
Currently seqkit seq filters by quality based on an average quality score. However, other tools such as FASTX's fastq_quality_filter, allow the user to select how many nucleotides (as a percentage) he…
-
`singularity exec ~/software/pangenie/container/pangenie.sif PanGenie-index -v keepA_C_0.5missing_100kbub_phased_deleteN_id_trim_filtered_SVs.vcf -r ZS11.genome.fa -t 24 -o PanGenie`
My vcf sequ…
-
Hi,
This is not an bug, but I'm trying to understand something. I get this message when running salmon quant: "replaced 53 non-ACGT nucleotides with random nucleotides." Can you please explain what t…
-
Right now we have all nucleotide as black color with yellow background, I want to change this and change the color scheme to standard nucleotides.
Standard colors are :
```
A - Red
G - Green
T - …
-
Hi,
I have a technical question regarding the trimming step. In the case that template switching reverse transcriptase is used, is it necessary to trim additional 3nt from one end to remove the ad…
-
Eurie: Can the results be uniqued if there are duplicates? For example, entering the same input will result in duplicate rows. Try
14 100705101 100705102
14 100705101 100705102
OR
rs780772…
-
- [Note that](https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/tutorials/pdbintro.html) the record type ATOM contains coordinates for atoms in standard residues, which include nucleic acids as well. S…
-
Hi,
I am trying to use WindowMasker -mk_counts:
`windowmasker -mk_counts -in /resources/b37/human_g1k_v37_decoy.fa > hg19.wmstat`
I get the following error:
```
computing the genome length
E…