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• Targetscan context+ scores, higher or lower
  I'm using Targetscan6.2 to predict miRNA targets. The results coming out really confused me, how ...
• Tuning of the HISAT2 parameters --mp and --sp
  Hi all, I played a little with the --mp and --sp parameters of the HISAT2 aligner. --mp ,...
• Trying to Understand Global alignment Score
  I try to Understand Global alignment Score with the following example- Is the solution right or ...
• Normalize sp score for MSA
  I used MUSCLE to calculate an SP (sum of pairs) score for MSA. I have multiple MSA with different...
• strand bias filtering with bcftools
  I called SNPs with samtools/bcftools from RNASeq data as follows, and then try to keep variants s...
• Reporting of multiple alignments using hisat2
  Hi, I would like try HISAT2 for aligning RNA-Seq data but I am uncertain about using the -k para...
• low BUSCO score
  Hello everyone. Just a quick review on my work. I'm working on the transcriptome data of *Raffles...
• global alignment score
  If you know that sequence (A) was 200bp and (B) was 150bp and they match exactly in a 100bp stret...
• what information can I obtain from a bunch of proteins IDs?
  hello,   Lets say I have a large of Proteins IDs as follows: sp|A3KN83|SBNO1_HUMAN sp|A6NHQ2|F...
• Do the BLAST scores have any relation between them?
  Is there any relation among the BLAST scores (E-value, similarity, identity, gap, bit score)?  Is...
• In ZRank scoring function, which gets a higher rank : The decoy with lower ZRank score or the one with a higher ZRank score
  I am ranking a set of protein-protein decoys generated by docking 2 proteins. For ranking I am us...
• Clustal Omega usage: Where is the score summary output?
  When I use the clustal omega I can't generate the score summary to evaluate the multiple alignmen...
• Getting alignments with lower scores on Biopython
  I am trying to align the following sequence using a python code. I am able to obtain the best sco...