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hellbio
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written 14.0 years ago by
Istvan Albert
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ccag
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12
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Comment: How to get sample names and genotype for SNP in multi-sample VCF file
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Kevin Blighe
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It is difficult for me to comment, as I am not too informed on your IT infrastructure. What I can say is that it would be better to run the…
Answer: Converting from BED to SAF/GFF
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I recently developed [bed2gff](https://github.com/alejandrogzi/bed2gff) to quickly convert .bed files to a gff3 format, a tool written in R…
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Now there is [bed2gff](https://github.com/alejandrogzi/bed2gff), if you want to work only with a gff file!
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now there is also [bed2gff](https://github.com/alejandrogzi/bed2gff) if you want to convert .bed files to .gff3 files!
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I recently developed [bed2gff](https://github.com/alejandrogzi/bed2gff) to quickly convert .bed files to a gff3 format, a tool written in R…
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Writing a solution for anyone interested.
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Comment: Rockhoppper - Suspiciously low percentage of perfectly aligned reads
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Thanks.
I'll try.
Comment: How to get sample names and genotype for SNP in multi-sample VCF file
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Hi! I'm trying to parallelize your code (to run on a bunch of files), but it is not working because of multiple processes spawning. Do you …
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> so I don't think the genome size is available.
Perhaps not for your specific strain but plenty of other Kpn genomes are available and th…
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For additional information,
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Comment: Rockhoppper - Suspiciously low percentage of perfectly aligned reads
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langziv
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By the way, I run Rockhopper on the untrimmed files, and the full match percentage grew to 20%-30%, and there are 1552 transcripts in the u…
Comment: Rockhoppper - Suspiciously low percentage of perfectly aligned reads
by
langziv
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Here are the total bases in 4 fastq files (after adapter removal): 1,027,852,411, 1,041,895,083, 1,121,786,520, 1,299,721,929.
I just rem…
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actually they didn't tell me which relatives were from mother side and which from father side, you are right. But how can you find related …
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Correct. Data that went into the assembly.
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