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5
votes
4
replies
1.1k
views
Protein fold topology search web-server
topology structure protein
updated 12 months ago by ★ 2.0k • written 12 months ago by ▴ 110
6
votes
6
replies
3.4k
views
Mapping PDB ID + chain ID to UniProt ID
uniprot pdb
updated 18 months ago by ★ 2.0k • written 19 months ago by ▴ 110
4
votes
3
replies
1.0k
views
Where to download a curated dataframe of the full archive of UniProt?
uniprot
updated 2.2 years ago by 54k • written 2.2 years ago by ▴ 110
1
vote
4
replies
885
views
Mapping NCBI taxID to evolution time?
evolution taxonomy
updated 2.3 years ago by 54k • written 2.3 years ago by ▴ 110
0
votes
1
reply
616
views
Automating form submission in webserver for prediction job
submission python form
updated 2.5 years ago by 13k • written 2.5 years ago by ▴ 110
1
vote
7
replies
1.9k
views
Statistics of amino acid usage of multiple aligned sequences?
alignment
updated 2.9 years ago by 21k • written 5.2 years ago by ▴ 110
8
votes
5
replies
1.0k
views
Why could we infer a physical time scale (e.g. a billion year) from a phylogenetic analysis?
phylogeny phylogenetic tree
4.5 years ago by johnnytam100 ▴ 110
25
votes
27
replies
2.9k
views
10 follow
So frustrated compiling necessary packages in a linux system
linux compile build
updated 5.4 years ago by ▴ 20 • written 5.5 years ago by ▴ 110
0
votes
1
reply
2.3k
views
Extracting sequence names from phylogenetic tree (in newick format or MEGA)?
phylogenetic tree
5.4 years ago by johnnytam100 ▴ 110
1
vote
5
replies
5.6k
views
R: scaling axis for different limits in hist
hist R
updated 5.4 years ago by 11k • written 5.4 years ago by ▴ 110
0
votes
3
replies
1.1k
views
How do we call this phenomenon in evolution?
evolution
5.4 years ago by johnnytam100 ▴ 110
0
votes
3
replies
947
views
When will the blast program stops giving out hits if there are too many (for web server and standalone)
blast
updated 5.4 years ago by 20 • written 5.5 years ago by ▴ 110
1
vote
1
reply
2.5k
views
How to query taxonomy ID using protein accession ID in NCBI or Uniprot?
ncbi uniprot taxonomy
5.5 years ago by johnnytam100 ▴ 110
0
votes
3
replies
862
views
How could we compare the extent of evolution between two species?
evolution
5.5 years ago by johnnytam100 ▴ 110
3
votes
6
replies
1.1k
views
What is the standard way of preparing homolog sequences for a phylogenetic analysis?
phylogenetic tree homolog
5.5 years ago by johnnytam100 ▴ 110
0
votes
2
replies
1.0k
views
Getting loadings of components from pcaMethods
pcamethods pca
updated 5.5 years ago by 8.4k • written 5.5 years ago by ▴ 110
0
votes
0
replies
871
views
Package or server to make peptide fragment library for ab initio structural modeling?
ab initio structural modeling
5.5 years ago by johnnytam100 ▴ 110
1
vote
2
replies
1.1k
views
Working Principle of Ancestral Sequence Reconstruction (ASR)
ancestral seqeunce reconstruction
updated 5.5 years ago by ★ 3.8k • written 5.5 years ago by ▴ 110
5
votes
6
replies
1.5k
views
How to reformat (i.e. to clean) NCBI .fasta archives into a singleline .fasta with only the unique identifier before each seqeunce?
linux bash ncbi fasta
updated 5.5 years ago by ★ 2.0k • written 5.6 years ago by ▴ 110
1
vote
1
reply
996
views
Is there any database that correlates annotation of a set of genes or gene ontology with the upstream regulatory genes (e.g. transcription factor)?
gene regulatory netwrok
updated 6.3 years ago by 27k • written 6.3 years ago by ▴ 110
0
votes
0
replies
1.5k
views
Transposable element (TE) of plants, how conserved and options for blastn?
transposable element TE blastn
updated 6.3 years ago by 20 • written 6.6 years ago by ▴ 110
2
votes
2
replies
4.0k
views
samtools sort failed to merge tmp .bam file
samtools bwa bam
6.4 years ago by johnnytam100 ▴ 110
0
votes
2
replies
1.7k
views
How to overlap the coverage profiles of read-mapping in IGV or other mapping result visualization tools?
IGV mapping bwa
updated 6.4 years ago by ★ 1.5k • written 6.6 years ago by ▴ 110
1
vote
1
reply
4.0k
views
Pindel during compile : pindel.h:35:24: error: htslib/sam.h: No such file or directory
pindel htslib
updated 6.5 years ago by 20 • written 6.6 years ago by ▴ 110
0
votes
2
replies
1.7k
views
Typical % of unmapped reads to genome contigs assembled from the same library?
bwa mapping Assembly
6.5 years ago by johnnytam100 ▴ 110
2
votes
1
reply
1.2k
views
Recommendation on k-mer counting package for multiple libraries?
kmer
updated 6.5 years ago by 11k • written 6.5 years ago by ▴ 110
1
vote
3
replies
3.0k
views
Platanus assembler : unable to start contig assembly, any problem with the command?
platanus
updated 6.5 years ago by ▴ 620 • written 6.5 years ago by ▴ 110
0
votes
4
replies
1.6k
views
Suggestion on contig assembler which respect a single copy mutation in a nonaploid genome?
Assembly insertion deletion indel
6.5 years ago by johnnytam100 ▴ 110
3
votes
19
replies
3.6k
views
Choosing sam flags to extract all reads mapped to 5' -> 3' OR 3' -> 5' of reference sequence?
sam bwa flag mapping
updated 6.5 years ago by 142k • written 6.5 years ago by ▴ 110
3
votes
4
replies
2.4k
views
Sam FLAGS : how could a read be described as "read unmapped" but "read in reverse strand"?
sam bwa
updated 6.5 years ago by ▴ 660 • written 6.5 years ago by ▴ 110
2
votes
10
replies
1.5k
views
6 follow
Is there any read-mapping package that could map only the first half or the second half of reads?
mapping bwa sequencing
6.5 years ago by johnnytam100 ▴ 110
0
votes
0
replies
1.4k
views
Identifying insertion of transposable element in a large plant genome, any recommendations on my situation?
transposable element illumina nanopore k-mer
6.6 years ago by johnnytam100 ▴ 110
0
votes
0
replies
1.2k
views
Fermikit : Any recommendation on visualization of the output files?
fermikit indel visualization vcf bam
6.6 years ago by johnnytam100 ▴ 110
0
votes
1
reply
1.5k
views
Breakdancer : samtools pid process 7845 is still there... invoking kill -9 on 7845 ... Closing samtools process : 7845
breakdancer samtools kill 7845
updated 2.5 years ago by • 0 • written 6.6 years ago by ▴ 110
5
votes
4
replies
6.6k
views
Breakdancer : Can't locate Statistics/Descriptive.pm in @INC while trying to run bam2cfg.pl
breakdancer bam2cfg.pl INC perl
updated 6.6 years ago by ▴ 110 • written 6.6 years ago by ▴ 110
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