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4
votes
2
replies
2.2k
views
Custom substitution matrix in biopython pairwise2 aligner
Biopython pairwise2 alignment
updated 4.0 years ago by ▴ 100 • written 4.0 years ago by ▴ 40
5
votes
11
replies
3.8k
views
Retrieve genome in fasta format from ncbi
biopython genome ncbi
updated 4.8 years ago by ▴ 10 • written 5.6 years ago by ▴ 40
2
votes
2
replies
1.8k
views
Exonerate raw score to percent identity
exonerate SmithWaterman alignment
updated 4.9 years ago by ★ 3.2k • written 4.9 years ago by ▴ 40
2
votes
5
replies
1.6k
views
Protein coding annotation from UCSC
ucsc annotation
updated 4.9 years ago by ▴ 650 • written 4.9 years ago by ▴ 40
1
vote
4
replies
1.1k
views
Annotating multiple sequence alignment
TEXshade MAF alignment
updated 5.2 years ago by 10k • written 5.2 years ago by ▴ 40
1
vote
4
replies
4.3k
views
Convert MAF to FASTA
alignment soft ucsc
updated 5.4 years ago by ★ 1.1k • written 5.4 years ago by ▴ 40
4
votes
9
replies
3.8k
views
MAF format help
ucsc mafFrags
5.4 years ago by tim.ivanov.92 ▴ 40
2
votes
5
replies
1.4k
views
Can i use ucsc track browser without a reference organism?
ucsc aln clustalw annotation
updated 5.4 years ago by 20 • written 5.6 years ago by ▴ 40
0
votes
0
replies
784
views
IGV browser for mafFrag output
IGV mafFrag MAF
5.4 years ago by tim.ivanov.92 ▴ 40
1
vote
3
replies
1.8k
views
SRA archive metadata
SRA sra-toolkit ncbi
updated 5.5 years ago by ★ 3.7k • written 5.5 years ago by ▴ 40
2
votes
5
replies
3.6k
views
Get gene counts from *.sam file and annotation
RNA-Seq alignment samtools
5.6 years ago by tim.ivanov.92 ▴ 40
2
votes
5
replies
953
views
*.sra files info
SRAToolkit next-gen
updated 10 months ago by 43k • written 5.6 years ago by ▴ 40
0
votes
0
replies
936
views
Software for genome coordinates from alignment
genome alignment gene
updated 5.6 years ago by 20 • written 5.7 years ago by ▴ 40
2
votes
3
replies
1.6k
views
Strand not working in biopython efetch
biopython efetch strand
updated 5.6 years ago by 21k • written 5.6 years ago by ▴ 40
0
votes
0
replies
1.3k
views
Adding annotation tracks for multiple alignment
visualization MAF multiple-alignment annotation
updated 11 months ago by 43k • written 5.6 years ago by ▴ 40
0
votes
3
replies
3.4k
views
Extract genbank features inside a given range
biopython genbank
updated 5.6 years ago by 21k • written 5.6 years ago by ▴ 40
0
votes
0
replies
1.0k
views
Target sequence from exonerate output
biopython exonerate
5.6 years ago by tim.ivanov.92 ▴ 40
1
vote
2
replies
3.0k
views
How to specify organism taxa in biopythons remote blast cmd?
biopyhon blastx
5.7 years ago by tim.ivanov.92 ▴ 40
0
votes
2
replies
980
views
Genome sequence from protein
sequence alignment genome
5.7 years ago by tim.ivanov.92 ▴ 40
3
votes
8
replies
2.1k
views
Getting genomic regions by local coordinates (protein/transcript)
python ucsc cruzdb
updated 5.7 years ago by 23k • written 5.7 years ago by ▴ 40
0
votes
1
reply
1.4k
views
Exonerate output handling/settingup
alignment exonerate biopython
5.7 years ago by tim.ivanov.92 ▴ 40
0
votes
0
replies
929
views
Blast+ settings to specify region-related accuracy
blast+ alignment
updated 6.1 years ago by 20 • written 6.3 years ago by ▴ 40
1
vote
2
replies
2.5k
views
Setting up blastn to retrieve FULL query sequence
blastn alignment
updated 6.2 years ago by 27k • written 6.2 years ago by ▴ 40
1
vote
3
replies
2.4k
views
Differential genes expression in knockdown experiment
Deseq2 Knockout edgeR tximport RSEM
6.3 years ago by tim.ivanov.92 ▴ 40
1
vote
2
replies
2.2k
views
nextflow implementation of grape pipeline
software error RNA-Seq
6.4 years ago by tim.ivanov.92 ▴ 40
0
votes
9
replies
2.5k
views
liftover between close species
genome
6.5 years ago by tim.ivanov.92 ▴ 40
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