Xiaojun928

samtools version1.11

2

Hi, When I tested snippy, it showed this warning and exited, > Need samtools --version >= 1.7 but you have 1.11 - please upgrade it But the latest version of...

Hi, Thanks for developing the fancy DiscoVista. I tested the example of frequency analysis and it generated results as expected (like `relativeFreq.pdf` and `tree.pdf`), which may suggest that DiscoVista was...

Hi, I want to extract the sequences based on the output of `*.core_sweeps.csv`, which provided the start and end positions. In the `README`, you mentioned that > `*.core_sweeps.csv`: The positions...

fali to parsing sequences

2

Hi, I meet trouble when running `python get_alignment_and_length_bias.py` for about 180 genomes. The following is the error: ``` .Parsing sequences for R2MyF9PMoHcjJAH9 multiprocessing.pool.RemoteTraceback: """ Traceback (most recent call last): File...

Error in gene prediction

9

Hi Simon, I'm getting errors running the gene prediction As no *_nett_filtered.fasta can be found, I ran Step1 independently. The command is: `perl Step_1_contigs_cleaning_and_gene_prediction.pl VIRSorter ./fasta input_sequences.fna 2` but I...

fail to make

11

Hi, Thanks for developing this great tool! After successfully running `cmake ./`, I got the error when running `make -j MP` like below. I did not find a similar issue...

Hi @zhouxiaofan1983 , Thanks for developing QuartetScores. Since I have a dataset showing a large number of incongruent gene trees (all with complete taxa), I ran QuartetScores to measure the...