xiekunwhy

Add Sar to taxa list

1

Hi, Sar is an independent clade in NCBI taxonomy database, but I can't find this taxa in eggnog-mapper taxa list, would you please add Sar to the list?  Best,...

Why not use GOs in pfam database?

1

Hi, I found that I can extract some new GO terms from pfam database, for example, in eggnog-mapper result table, TPR_8 can be found in PFAM column, and TPR_8 match...

Multiple round of metaeuk

1

Hi, I am anotating some big animal and plant genomes, when doing homolog base annotation, I want to use those proteins in OrthoDB as homolog proteins, but I found that...

The gff format is wrong?

14

## Expected Behavior Out put a correct(common) gff file like here https://m.ensembl.org/info/website/upload/gff3.html. ## Current Behavior 1) The 2nd column of gff file is annotation source, and the 3rd column is...

Some other hic scaffolder

4

Hi, I found some other hic scaffolders https://github.com/dfguan/pin_hic https://github.com/kingforest93/EndHiC(https://github.com/fanagislab/EndHiC) https://github.com/wtsi-hpag/scaffHiC Best, Kun

How to get Python3 supported version?

1

Hi, How to get a Python3 supported version of SALSA? Best, Kun

Why do not use wiggle track without --UTR=on?

2

Hi, I just want to know why braker pipeline do not use wiggle track when doing code-gene prediction (without adding UTRs), wiggle exonpart may cause some bad affect ? Best,...

Why all backbone and asm file are empty?

6

Hi, I used ~30X ONT data and ~300X illumina data to assemble a high heterozygous genome. All backbone and asm file are empty, why? The several last line of the...

The format of gdistkey file?

5

Hi, Could you explain what is --gdistkey and provide an example format? And what is the difference between --gdistkey file and --map file? Best, Kun

ERROR: Error during redundancy reduction!

1

# Please report - [x] version of RNA-Bloom with `java -jar RNA-Bloom.jar -version` /Bio/User/software/anaconda3/envs/rnabloom/bin/rnabloom RNA-Bloom v2.0.0 - [x] version of java with `java -version` /Bio/User/software/anaconda3/envs/rnabloom/bin/java -version openjdk version "17.0.3-internal" 2022-04-19...