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vcftools and SnpSift give different values for Ts/Tv ratio

vcf transversion variant transition snp written 4.8 years ago by ethan.kaufman • 360

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PAR-clip T to C mutations becoming T to G in minus strand?

par-clip transversion mapping igv written 5.2 years ago by t.candelli • 60 • updated 5.2 years ago by Istvan Albert ♦♦ 81k

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382

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Reference TiTv ratio for mouse WGS?

mouse transversion transition snp titv written 11 months ago by serpalma.v • 20 • updated 9 months ago by Biostar ♦♦ 20

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Recent Replies

C: BLAST: Trying to find parameters to get the same results via Python as via the N by Shigeta • 460
i'm upvoting this because your code is the only example of qblast parameters i could find in half...
C: NR annotation and Uniprot annotation by prince26121991 • 50
I will not suggest you to consider uniprot result in this kind of case. Because if you think logi...
C: How to find the hub genes in the gene co-expression network constructed by WGCNA by Arindam Ghosh • 200
Regarding the third method, if I am not wrong, NetworkAnalyzer simply counts the number of edges ...
C: Has anyone run Phobius locally? Error - could not read provided fasta sequences by cgjosephlee • 0
Edit `phobius.pl` L25 to `my $DECODEANHMM = "$PHOBIUS_DIR/decodeanhmm.64bit";` and everythin...
C: NR annotation and Uniprot annotation by mxlsherry1992 • 30
Thank you so much!! pretty clear, and if for the publication, if these are important sequences, w...
C: scRNA-seq and the batch effects by Bogdan • 890
yes, thank you Igor. I was wondering what the experience of the people was ... , or if there ar...
C: UCSC Genome Browser GENCODE Subtrack Label Highlighted? by Kevin Blighe ♦ 52k
Thank you very much for posting this, Lou.
A: Getting CDS from chromosome positions by Luis Nassar • 210
The UCSC Genome Browser may not be the most efficient tool to go from position coordinate to pred...
C: scRNA-seq and the batch effects by igor ♦ 8.9k
I think you already asked this previously: https://www.biostars.org/p/401404/
C: Fast download of FASTQ files from the European Nucleotide Archive (ENA) by madraghrua1690 • 0
./loadDump.sh I simply name my ID file IDs.txt and put it into the same directory as the scr...
C: Fast download of FASTQ files from the European Nucleotide Archive (ENA) by ATpoint ♦ 26k
Please show the full command you used. It works fine on my machine. It seems that the same access...
A: Locating telomere on a given chromosome by Luis Nassar • 210
Hello, Late to the party, but present non-the-less. This question has come up before in the Gen...

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