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147 results • Page
2 of 3
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Votes
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0
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0
replies
182
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 4 days ago by
Ram
43k • written 4 days ago by
mja
• 0
0
votes
0
replies
183
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
4 days ago by
Nitin
• 0
0
votes
0
replies
183
views
absolute path for symbolic links in Snakefile
Snakemake
updated 4 days ago by
Ram
43k • written 4 days ago by
yifangt86
▴ 60
0
votes
0
replies
176
views
Chemical structure validation
structure
cap
validation
metabolite
4 days ago by
Rodolfo Adrián
• 0
0
votes
1
reply
253
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 4 days ago by
GenoMax
141k • written 4 days ago by
bioyas
▴ 10
0
votes
0
replies
199
views
Copy number variation plot
Copy-number-variation
genomics
updated 4 days ago by
Ram
43k • written 4 days ago by
Emmi
• 0
0
votes
0
replies
171
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
4 days ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
272
views
Could you please assist in identifying this cluster?
single-cell
updated 4 days ago by
Ram
43k • written 4 days ago by
Kazo
• 0
0
votes
0
replies
190
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 4 days ago by
Ram
43k • written 4 days ago by
Dinmukhamed
• 0
0
votes
0
replies
188
views
miRDeep2: How to get the read counts
mirdeep2
4 days ago by
Atul K.
• 0
0
votes
0
replies
198
views
Lncipedia GTF file error
Proteomics
updated 4 days ago by
Ram
43k • written 4 days ago by
atharvakarkare14
▴ 10
3
votes
3
replies
455
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 3 days ago by
swbarnes2
14k • written 4 days ago by
joe
▴ 510
0
votes
2
replies
527
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
4 days ago by
航太郎
• 0
0
votes
0
replies
208
views
create genewise sync file in popoolation
popoolation
updated 5 days ago by
GenoMax
141k • written 5 days ago by
N.Y.Wiyana-Hewage
• 0
0
votes
2
replies
365
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
4 days ago by
Ashok
• 0
0
votes
2
replies
406
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
4 days ago by
Ashok
• 0
0
votes
0
replies
207
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 5 days ago by
Ram
43k • written 5 days ago by
samuelkalandarov2002
▴ 10
0
votes
2
replies
414
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
4 days ago by
_quantum_girl_
▴ 10
0
votes
0
replies
197
views
traying to make a maf from an already annotated vcf
vcf
vcf2maf
maf
maftools
VEP
1 day ago by
Javier
• 0
0
votes
0
replies
172
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
5 days ago by
enferdeflame
• 0
1
vote
1
reply
404
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
updated 2 days ago by
Gordon Smyth
★ 7.0k • written 5 days ago by
Chris
▴ 260
0
votes
1
reply
397
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 5 days ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
0
votes
0
replies
155
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 5 days ago by
Ram
43k • written 5 days ago by
bioinfo223
▴ 10
0
votes
0
replies
170
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
5 days ago by
P.
• 0
0
votes
0
replies
163
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
5 days ago by
ekirsch
• 0
1
vote
1
reply
378
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
4 days ago by
renan.igor
• 0
0
votes
0
replies
168
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
6 days ago by
synat.keam
▴ 100
0
votes
1
reply
259
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 6 days ago by
GenoMax
141k • written 6 days ago by
ycts
• 0
0
votes
4
replies
567
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
4 days ago by
Kai Xin
• 0
1
vote
1
reply
218
views
Retrieve a % coverage for each transcript
RNA-seq
updated 6 days ago by
Ram
43k • written 6 days ago by
jammydodger123456
▴ 40
0
votes
2
replies
361
views
How can I solve this error?
metal
5 days ago by
22211020193
• 0
0
votes
0
replies
161
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 6 days ago by
GenoMax
141k • written 6 days ago by
srimmer
• 0
1
vote
2
replies
266
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 6 days ago by
Ram
43k • written 6 days ago by
aniigodwinn
• 0
0
votes
0
replies
349
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
6 days ago by
Ronin
• 0
2
votes
7
replies
796
views
Removing duplicates
duplicates
ONT
minimap2
updated 5 days ago by
joe
▴ 510 • written 6 days ago by
quentinperriere
• 0
0
votes
1
reply
191
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 6 days ago by
DKA
▴ 40 • written 6 days ago by
james.melhorn
• 0
0
votes
1
reply
177
views
Freyja plot error
Freyja
updated 6 days ago by
Ram
43k • written 6 days ago by
Adyasha
• 0
0
votes
0
replies
152
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
6 days ago by
chemokine-1
▴ 10
0
votes
4
replies
486
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
5 days ago by
feather-W
• 0
0
votes
2
replies
210
views
Bedmethyl file format
bedmethyl
methylation
updated 6 days ago by
GenoMax
141k • written 6 days ago by
njornet
▴ 20
0
votes
0
replies
164
views
sequence table for DADA2 chimera filtering
OTU
sequencetable
DADA2
6 days ago by
Ali
• 0
2
votes
4
replies
304
views
SnpEff annotates coding duplication as intronic?
snpeff
6 days ago by
kirill.zaslavsky
• 0
0
votes
2
replies
235
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
6 days ago by
mropri
▴ 150
0
votes
2
replies
303
views
GSEA analysis in R
GSEA
R
Arabidopsis
5 days ago by
Sudip
• 0
2
votes
5
replies
419
views
Where to find the homopolymer regions bed file for Hg002 genome?
simple-repeats
hg002
bed
homopolymer-regions
6 days ago by
Bikram Kumar
• 0
0
votes
2
replies
230
views
VCF annotation with gnomADv4 using R package
annotation
gnomADv4
R
VCF
6 days ago by
DKA
▴ 40
4
votes
13
replies
841
views
RNAseq of primary tumor and metastases in two different organ
metastases
RNA-seq
DEG
R
updated 6 days ago by
BioinfGuru
★ 1.7k • written 12 days ago by
matteo.levorato
• 0
1
vote
2
replies
223
views
permutation test in edgeR
rna-seq
edgeR
updated 1 day ago by
Gordon Smyth
★ 7.0k • written 15 days ago by
Netanel
• 0
0
votes
2
replies
534
views
autodockvina
python
python3
autodock
updated 5 days ago by
Ram
43k • written 3 months ago by
iamsmor
• 0
0
votes
0
replies
271
views
Choice of relatedness cutoff for GWAS of a large cohort (>100K samples)
relatedness
IBD
GWAS
updated 1 day ago by
Ram
43k • written 14 months ago by
Oak
▴ 10
147 results • Page
2 of 3
Recent Votes
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Comment: Redirection of Duplicate PMIDs
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Should I Remove All Positions Containing A Gap In A Multiple Alignment Prior To Creating A Phylogenetic Tree?
Answer: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
Comment: Installing feature counts package in command line
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We have releases about monthly in order to keep our data accurate and reflect current understanding. In 4 years, there have been about 40 r…
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141k
Let us know when you find out. Would be a useful thing to know what the data looks like.
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
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atowns21
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Yes, that is a very good idea. Thanks for the help!
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
GenoMax
141k
Only thing would be to try them out. See if you can detect them in the data you have. You could also simply look for unique representativ…
Comment: How to calculate identity percentage between proteins contained in a FASTA file?
by
GenoMax
141k
`clustal omega` can calculate distance matrix between two proteins (makes sense if your proteins are of similar size). You could try that: …
Comment: Should I use unpaired reads from trimmomatic
by
swbarnes2
14k
If the unpaired are _2, files, the _1 must exist somewhere. But the simple answer is probably going to be to just use all the _2 only. Yo…
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
by
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141k
> The needless granularity (fake precision) was obvious from the start You are assuming that all data generated is always of great quality…
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Istvan Albert
100k
There are various versions of blast, that search in translated spaces, see blastx and tblastn https://blast.ncbi.nlm.nih.gov/Blast.cgi …
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100k
If you have lots of data, both paired and unpaired, then the best strategy is probably to treat them separately and merge the counts at the…
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This forum is dedicated to asking their question on bioinformatics. As long as the topic is bioinformatics, all questions are welcome, and …
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I interpret this as an admission by SRA that phred scores are practically useless. The needless granularity (fake precision) was obvious f…
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by
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43k
If their github repo is alive, raise an issue there.
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by
Ngrin
• 0
Yeah makes sense. I was following their github. Thanks for pointing this out.
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