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Dear Author,
when running the following:
perl pogenom.pl --vcf_file pico127_pico127.002.vcf --out pico127_pico127.002_pi_fst_gene --gff_file pico127_pico127.002.gff --genome_size 2660050 --gene…
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Hi,
First of all, I would like to thank you for developing this wonderful tool.
My question is about the input files of the tool.
Currently I have a genome sequence where gene prediction is a b…
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Hello again,
I closed the previous issue I was having as I feel we resolved this - the program ran now after I did a first assembly step to reduce the complexity of a full MGS file of raw data.
No…
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This is kind of related to #27. Basically, the signal HMM searches the entire protein, ideally the hit is at the beginning, but it would be nice to know for sure where the match was. Sometimes prodiga…
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I am trying to match prokka gff3 output to blast output to find which genes some sequences are lining up with. The way I am doing this is blasting the sequence against the fasta file and then matching…
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Hi there. I am trying to retain the coverage for genes of interest found in my assembled contigs, and have a region BED file, a thresholds BED file, a global.dist.txt file, and a summary.txt file.
…
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Hi,
Thank you for your tool. I am currently using FeGenie on contigs and have tried to use it on ORFs as well. My results are quite different and those for ORFs are incoherent. I have the impressi…
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**Snakemake version**
5.10.0
**Describe the bug**
Calling a subworkflow `sub` with a target that is not a file, but rather a pseudo-target, the target rule first runs successfully, but then S…
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Hello Thomas,
Our research group is working on couple comparative genomics paper and planning to use your software extensively but I am having problem with my protein files for couple prokaryotic gen…
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