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Showing :
questions
3
votes
3
replies
387
views
Is there an archive for Ensembl Metazoa releases?
ensembl
metazoa
3 months ago by
Michael
54k
0
votes
2
replies
661
views
Does ploidy in variant calling affect admixture detection with TreeMix?
ploidy
admixture
SNP
TreeMix
6 months ago by
Michael
54k
2
votes
1
reply
830
views
Estimating Nucleotide diversity (Pi) from VCF file in polyploid organism (tetraploid)
vcf
genetics
population
polypoid
updated 12 months ago by
dthorbur
★ 1.9k • written 12 months ago by
Michael
54k
1
vote
3
replies
982
views
Looking for DeepVariant training data on yeast strains
data
training
DeepVariant
16 months ago by
Michael
54k
0
votes
1
reply
501
views
Need an original PacBio SMRT Sequel fastq file from 2020
PacBio
SMRT
Sequel
updated 19 months ago by
benformatics
3.9k • written 19 months ago by
Michael
54k
5
votes
2
replies
724
views
Indexing a BAM file without read names
samtools
bam
updated 10 months ago by
Ram
43k • written 19 months ago by
Michael
54k
3
votes
14
replies
2.2k
views
6 follow
Generating thumbnail previews automatically from PDB files
pymol
chimera
image
PDB
updated 22 months ago by
Jiyao Wang
▴ 370 • written 22 months ago by
Michael
54k
4
votes
11
replies
2.0k
views
What does it "mean" when MrBayes chooses rtREV as substitution model?
mrbayes
substitution
phylogeny
matrix
2.5 years ago by
Michael
54k
4
votes
9
replies
4.0k
views
AlphaFold2.ipynb on Colab running out of memory
AlphaFold2
python
colab
updated 2.6 years ago by
GenoMax
141k • written 2.6 years ago by
Michael
54k
0
votes
3
replies
1.1k
views
Downloading PE reads from SRA but reads are not split
sra
fastq-dump
rna-seq
updated 2.6 years ago by
lieven.sterck
15k • written 2.6 years ago by
Michael
54k
2
votes
1
reply
674
views
Prepare a GenBank submission: Can you turn this Perl script into a one-liner?
assembly
perl
code-golf
updated 3.1 years ago by
GenoMax
141k • written 3.1 years ago by
Michael
54k
6
votes
23
replies
2.4k
views
Removing Illumina PCR primer sequences from TSA for GenBank upload
GenBank
assembly
primer
3.1 years ago by
Michael
54k
0
votes
0
replies
1.0k
views
Getting KOBAS species annotation database for salmon (salmo salar)
KOBAS
kegg
enrichment analysis
3.1 years ago by
Michael
54k
12
votes
15
replies
3.5k
views
How to "linearize" or "unfold" a PDB format structure to secondary structure?
PDB
protein structure
secondary structure
4.7 years ago by
Michael
54k
11
votes
6
replies
12k
views
7 follow
Is There A Software For 3D Printing Of Pdb Structures?
pdb
updated 5.2 years ago by
lindagrham21
• 0 • written 10.8 years ago by
Michael
54k
37
votes
17
replies
6.9k
views
9 follow
Identified Potential Non-Coding Rna, And Then?
sequence
rna
prediction
updated 2.1 years ago by
Ram
43k • written 13.8 years ago by
Michael
54k
4
votes
3
replies
7.3k
views
Efficient Fastq Parsing And Manipulation In Java (With Or Without Biojava)
fastq
java
biojava
parsing
updated 5.6 years ago by
Ram
43k • written 13.8 years ago by
Michael
54k
27
votes
27
replies
10k
views
6 follow
How To Detect And Query Poly-Allelic Snps?
snp
allele
biomart
dbsnp
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Michael
54k
5
votes
6
replies
3.5k
views
Extracting Sub-cellular location from Uniprot into tabular format
SwissProt
UniProt
Parsing
updated 5.8 years ago by
Elisabeth Gasteiger
★ 2.4k • written 5.8 years ago by
Michael
54k
6
votes
6
replies
2.1k
views
Transfer of MHC-I, MHC-II epitope prediction to non-model organism (fish)
vaccinology
MHC
prediction
immunoinformatics
6.2 years ago by
Michael
54k
19
votes
8
replies
9.5k
views
Getting The Ld Data For The 1000 Genomes
linkage
genome
updated 6.3 years ago by
Biostar
20 • written 13.5 years ago by
Michael
54k
1
vote
3
replies
4.2k
views
Trinity: how to avoid out of memory error in butterfly
RNA-Seq
Trinity
software error
butterfly
6.7 years ago by
Michael
54k
6
votes
4
replies
4.6k
views
Weird discrepancy of assigned reads in featureCounts when run on paired-end data
featureCounts
subreads
rna-seq
6.9 years ago by
Michael
54k
0
votes
0
replies
1.1k
views
Is the STRING DB frontend code available?
stringdb
software
network
visualization
6.9 years ago by
Michael
54k
0
votes
3
replies
1.9k
views
How to plot a dendrogram with images of RNAstructure at the leaves/tips?
dendrogram
visualization
structure
7.1 years ago by
Michael
54k
18
votes
6
replies
9.8k
views
8 follow
Peak Detection In Intergenic Regions In Rna-Seq Data
rna
peak-calling
bioconductor
coverage
updated 7.2 years ago by
Charles Warden
8.2k • written 13.9 years ago by
Michael
54k
25
votes
12
replies
13k
views
7 follow
Conversion Of Blat Output To Sam/Bam
blat
format
conversion
bam
sam
updated 7.3 years ago by
Botond Sipos
★ 1.7k • written 13.3 years ago by
Michael
54k
5
votes
4
replies
4.3k
views
How can we download all TSA and WGS from NCBI Trace by taxon programmatically?
NCBI
trace
eutils
efetch
Assembly
7.5 years ago by
Michael
54k
2
votes
2
replies
2.1k
views
Misleading mirDeep2 output? recall not tallying
RNA-Seq
mirDeep2
mirna
7.5 years ago by
Michael
54k
12
votes
5
replies
4.6k
views
mirDeep2 using bowtie vs. bwa - why do more aligned reads yield less miRNA
mirDeep2
7.5 years ago by
Michael
54k
7
votes
8
replies
5.8k
views
How To Compute Local Rna Duplex Stability At Variable Temperature (Other Than 37 Degr.)?
rna
updated 7.9 years ago by
Biostar
20 • written 11.4 years ago by
Michael
54k
4
votes
8
replies
8.6k
views
How to convert MUMmer output to SAM, GFF, or any other common format
mummer
format
parser
updated 8.1 years ago by
kloetzl
★ 1.1k • written 8.1 years ago by
Michael
54k
2
votes
2
replies
2.4k
views
Can LastZ aligner work with IUPAC ambiguity in Fasta files?
lastz
aligment
iupac
ambiguity
8.1 years ago by
Michael
54k
6
votes
9
replies
3.8k
views
Random shuffling of features leaving gene models intact
gff
genome
shuffle
bedtools
updated 2.6 years ago by
Ram
43k • written 9.9 years ago by
Michael
54k
18
votes
15
replies
17k
views
7 follow
How To Make A Blast Database With Taxonids From Ncbi Query.
blast
makeblastdb
metagenomics
taxonomy
updated 8.1 years ago by
5heikki
11k • written 12.4 years ago by
Michael
54k
7
votes
4
replies
3.7k
views
Running multiple instances of STAR in one directory
RNA-Seq
galaxy
parallel
STAR
updated 20 months ago by
Ram
43k • written 8.5 years ago by
Michael
54k
1
vote
5
replies
2.1k
views
Re-counting RNA-seq with new gene-models - to remove or not to remove old overlaps for normalization?
cpm
normalization
count
RNA-seq
updated 19 months ago by
Ram
43k • written 8.6 years ago by
Michael
54k
1
vote
2
replies
2.1k
views
Looking for a plugin exporting spliced sequence from GBrowse or Tripal.
gbrowse
gmod
tripal
sequence
mrna
updated 23 months ago by
Ram
43k • written 9.1 years ago by
Michael
54k
172
votes
34
replies
26k
views
29 follow
Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
r
books
bioconductor
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Michael
54k
11
votes
4
replies
5.3k
views
Determining Programmatically Whether Or Not A Reaction Is Reversible In Kegg (Or Metacyc)
kegg
model
pathway
updated 9.6 years ago by
Biostar
20 • written 13.2 years ago by
Michael
54k
9
votes
9
replies
5.0k
views
Is There A Diff For Gff Files (Gffdiff)?
gff
gff3
updated 9.6 years ago by
Daniel Standage
4.1k • written 10.6 years ago by
Michael
54k
14
votes
7
replies
5.3k
views
Does FPKM scale incorrectly in case of unequal mapping rates?
normalization
RNA-Seq
FPKM
contamination
updated 2.6 years ago by
Ram
43k • written 10.0 years ago by
Michael
54k
4
votes
2
replies
4.3k
views
Is It True That There Is No Parser For Interproscan 5 Xml?
10.2 years ago by
Michael
54k
5
votes
1
reply
2.9k
views
What Makes A Phylogenetic Tree Interesting?
phylogenetics
tree
evolution
updated 10.4 years ago by
Biostar
20 • written 10.5 years ago by
Michael
54k
2
votes
3
replies
3.3k
views
Error In Getmonograph() From Bioconductor Book.
bioconductor
r
11.7 years ago by
Michael
54k
9
votes
2
replies
3.3k
views
Please Recommend A *Good* Ontology Editor For Biomedical Ontologies
ontology
updated 11.8 years ago by
biobot 0.0.77.a.1099
6.2k • written 11.8 years ago by
Michael
54k
52
votes
26
replies
9.7k
views
11 follow
What Is Your Experience With Gmod Tools Or Alternatives?
non
database
12.2 years ago by
Michael
54k
51
votes
16
replies
13k
views
8 follow
Should We Attempt To Redefine The Cigar String In Sam/Bam Format?
cigar
sam
samtools
format
updated 12.2 years ago by
lh3
33k • written 12.2 years ago by
Michael
54k
31
votes
18
replies
17k
views
How To Define Percent-Identity From A Cigar String/ A Bam/Sam File?
sam
identity
bam
cigar
updated 2.4 years ago by
Jeremy Leipzig
22k • written 12.2 years ago by
Michael
54k
51
votes
25
replies
6.9k
views
10 follow
What Is Your Experience With Bioinformatics Webservices?
web-service
subjective
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Michael
54k
51 results • Page
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