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116,698 results • Page
2 of 2334
Sort: Rank
Rank
Views
Votes
Replies
0
votes
3
replies
190
views
Software to separate reads from different individuals
software
development
nanopore
updated 1 day ago by
GenoMax
141k • written 1 day ago by
njornet
▴ 20
0
votes
0
replies
81
views
Seeking Guidance on Identifying Mutations in DARs from ATAC Data in Cancer Genomes
Genomics
Bioinformatics
ATACseq
CancerResearch
1 day ago by
David
• 0
4
votes
5
replies
259
views
High Malat-1 expression in single cell data
cell
analysis
single
updated 1 day ago by
dsull
★ 5.9k • written 1 day ago by
Kazo
▴ 10
0
votes
2
replies
153
views
How to update R on ubuntu
installation
update
R
apt-get
1 day ago by
Bosberg
▴ 50
4
votes
0
replies
117
views
Herald:
The Biostar Herald for Monday, April 29, 2024
herald
1 day ago by
Biostar
2.7k
0
votes
1
reply
121
views
Two references 1. genome 2. plasmid for bowtie2
WGS
BacterialGenomics
Alignment
updated 1 day ago by
GenoMax
141k • written 1 day ago by
Ruqaiya
• 0
0
votes
1
reply
267
views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer
insertion
Pindel
variation
Delly
updated 1 day ago by
trausch
★ 1.9k • written 18 days ago by
zec018
• 0
0
votes
0
replies
91
views
LEfSe
LEfSe
1 day ago by
benkosta
• 0
0
votes
0
replies
79
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
1 day ago by
Sara
▴ 30
1
vote
4
replies
359
views
Limma Analysis Agilent Microarray Data (GPL1708)
Microarray
Limma
Agilent
1 day ago by
hagl
▴ 10
0
votes
2
replies
170
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
13 hours ago by
matteo.levorato
• 0
0
votes
2
replies
135
views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression
DEG
model
1 day ago by
Lluís R.
★ 1.2k
0
votes
1
reply
127
views
How to solve DESeq2 Error in checkFullRank(modelMatrix)?
RNA-Seq
DESeq2
updated 1 day ago by
i.sudbery
19k • written 1 day ago by
DOBI
• 0
0
votes
0
replies
94
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass
Bioinformatics
spectrometry
Proteins
1 day ago by
atharvakarkare14
▴ 20
5
votes
16
replies
618
views
How many reads for WGS Sequencing?
WGS
Bacterial-Genomics
1 day ago by
Ruqaiya
• 0
0
votes
2
replies
183
views
What should I consider as FASTA for dataset?
PDB
FASTA
1 day ago by
Nafi
• 0
37
votes
24
replies
1.7k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 19 hours ago by
i.sudbery
19k • written 3 days ago by
noodle
▴ 580
0
votes
0
replies
81
views
Differential accessibility using DiffBinf
diffbind
1 day ago by
Shloka
• 0
0
votes
0
replies
88
views
vg call vs vg surject
vg
variation
graphs
updated 1 day ago by
GenoMax
141k • written 2 days ago by
aliraza3119
• 0
0
votes
1
reply
118
views
Can I merge Hi-C fastq files from different lanes?
GenomeAssembly
BWA-MEM2
Hi-C
updated 1 day ago by
GenoMax
141k • written 2 days ago by
Winter
• 0
2
votes
7
replies
1.2k
views
6 follow
Differential Expression using Isoseq-supplemented reference transcriptome
RNA-Seq
Salmon
Isoseq
updated 2 days ago by
Gordon Smyth
★ 7.1k • written 8 months ago by
Calum
▴ 10
0
votes
1
reply
192
views
Finding batch and outlayers
Pca
updated 1 day ago by
christopher medway
▴ 450 • written 2 days ago by
Tigran
• 0
2
votes
2
replies
183
views
PDB related issue
rcsb
pdb
updated 2 days ago by
noodle
▴ 580 • written 2 days ago by
Nafi
• 0
0
votes
0
replies
104
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annotation
1 day ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
371
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 9 hours ago by
LauferVA
4.2k • written 2 days ago by
jinyu
▴ 10
0
votes
9
replies
2.5k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 1 day ago by
Ram
43k • written 8 months ago by
Gio
• 0
2
votes
5
replies
434
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
2 days ago by
ashaneev07
▴ 20
0
votes
1
reply
154
views
Downloading full alignments from Pfam
pfam
updated 2 days ago by
GenoMax
141k • written 2 days ago by
bef1
• 0
0
votes
1
reply
739
views
Can I run cellassign on samples independently if there is batch effect present?
RNA-Seq
R
cellassign
batch-effect
updated 2 days ago by
Francesco
▴ 10 • written 3.3 years ago by
gt
▴ 30
3
votes
2
replies
274
views
ChIP-seq datasets: input samples omitted?
ChIP-seq
Normalization
NGS
updated 1 day ago by
i.sudbery
19k • written 4 days ago by
vanbelj
▴ 40
0
votes
0
replies
113
views
adjusting for confounders in LMER in R
confounders
LMER
R
updated 1 day ago by
dariober
14k • written 2 days ago by
rene.j.erhardt
▴ 20
1
vote
3
replies
273
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 2 days ago by
ATpoint
82k • written 3 days ago by
Francesco
▴ 10
0
votes
0
replies
132
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
3 days ago by
tnminh89
▴ 10
0
votes
0
replies
134
views
Filter low express genes in microarray data
microarray
3 days ago by
Chris
▴ 260
0
votes
1
reply
318
views
absolute path for symbolic links in Snakefile
Snakemake
updated 3 days ago by
Jesse
▴ 740 • written 11 days ago by
yifangt86
▴ 60
0
votes
2
replies
333
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 3 days ago by
Jesse
▴ 740 • written 5 days ago by
Broccoli
• 0
4
votes
3
replies
339
views
Source other conda environments in a nextflow pipeline when nextflow itself is in a conda environment?
hpc
conda
nextflow
updated 3 days ago by
Arup Ghosh
3.2k • written 4 days ago by
chaco001
▴ 40
1
vote
3
replies
365
views
Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:1.1.1.4, 1.1.1.-, 1.1.1.303)?
ontology
metagenomics
database
enzymes
genomics
updated 2 days ago by
Mensur Dlakic
★ 27k • written 4 days ago by
O.rka
▴ 710
0
votes
2
replies
243
views
Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
RNA-Seq
edgeR
3 days ago by
Guille
• 0
4
votes
2
replies
278
views
How to use limma to find differentially expressed genes in response to a continuous variable
limma
voom
R
1 day ago by
pairedttest
▴ 10
3
votes
6
replies
2.0k
views
7 follow
DNA methylation preprocessing
SWAN
DNA
methylation
Funnorm
updated 4 days ago by
Ram
43k • written 2.4 years ago by
SYOSY
▴ 10
0
votes
0
replies
552
views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell
Spatial-Transcriptomics
4 days ago by
biocellbio
• 0
4
votes
8
replies
618
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 4 days ago by
Alex Reynolds
35k • written 5 days ago by
J
▴ 10
4
votes
7
replies
662
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 3 days ago by
dsull
★ 5.9k • written 7 days ago by
qudrat.nii
▴ 10
19
votes
11
replies
14k
views
10 follow
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated 4 days ago by
cmdcolin
★ 3.8k • written 10.8 years ago by
J.F.Jiang
▴ 920
3
votes
2
replies
322
views
what is the purpose of indexing the reference genome (Kallisto)
indexing
Kallisto
updated 4 days ago by
dsull
★ 5.9k • written 5 days ago by
Aaliya
▴ 10
3
votes
0
replies
194
views
News:
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy
Generative-AI
scRNA
Machine-Learning
updated 4 days ago by
Ram
43k • written 4 days ago by
Claire Watson
▴ 60
0
votes
2
replies
273
views
Rare Disease Variant Pathway Analysis
Pathway-analysis
updated 4 days ago by
Ram
43k • written 5 days ago by
The_PyPanda
▴ 10
0
votes
0
replies
198
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
4 days ago by
HarperReed
• 0
3
votes
3
replies
286
views
genome assembly records not present in assembly_summary.txt
ncbi
bacteria
assembly
updated 4 days ago by
GenoMax
141k • written 4 days ago by
sapuizait
▴ 10
116,698 results • Page
2 of 2334
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Answer: Verify if all the components of a pathway are present in a genomes
Answer: p-value in CIBERSORT
Answer: Can I have multiple active GDC download tokens?
Answer: Can I have multiple active GDC download tokens?
Comment: Can I have multiple active GDC download tokens?
Comment: Programmatically retrieving positions of protein active site residues
Comment: Programmatically retrieving positions of protein active site residues
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Comment: POSSUM not working due to incompatible pssm file
by
Ram
43k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: after selecting specific GO terms to plot, cneplot is not showing any color for
by
Ram
43k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: Telescope issue
by
GenoMax
141k
Looks like there is a tab missing between the sequence and the quality string.
Comment: Post-imputation plot
by
LChart
3.9k
I would pull out the variants with panel_freq ~ 1 - upload_freq and min(panel_freq, upload_freq) < 0.4. I would check if these are G/C or A…
Comment: Telescope issue
by
eleven11
• 0
Hello the output is A01940:33:GW2208142379th:3:1317:24126:3505 355 chr14 16651125 0 150M = 17034150 122900 GCTAACAGAGTTGAACCTTTCTATTG…
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
GenoMax
141k
Looking at the [code here][1] `bundle_uuid` seems to be related to the submissions to HCA. Samples that ran on multiple lanes seem to have …
Comment: What does it mean single base resolution in sequencing?
by
LauferVA
4.2k
this is very true and increasingly true as time goes forward. thanks for supplementing this post with your own :-)
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
jeffrey.maurer.informatics
• 0
Thank you, but I've already checked out that site to see if I was missing anything and I don't see any answers to my questions there.
Answer: p-value in CIBERSORT
by
Aspire
▴ 320
You have not explicitly specified the number of permutations (which are used to calculate the p-value). The default value of the permutatio…
Comment: Telescope issue
by
GenoMax
141k
> CIGAR and query sequence are of different length [W::sam_read1] Parse error at line 9954941 Problem appears to be at that line. Can you …
Comment: KEGG Pathways
by
Ram
43k
Give us as much detail as you can. What error does it give you?
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
GenoMax
141k
SRA Run Selector shows a better view of the metadata: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA761679&o=acc_s%3Aa
Comment: Adjust pvalue in R with different approach give me all different outcome
by
Aspire
▴ 320
- `p.adjust()` is supposed to receive a **numeric vector of p-values**, not a matrix. - It makes no sense to "adjust" just one p-value, …
Comment: Downsampling fastq file
by
marco.barr
▴ 80
I understood where the problem lies. I discussed with my wet lab colleagues (this is part of a bioinformatician's job...) and by showing th…
Comment: Programmatically retrieving positions of protein active site residues
by
me
▴ 760
This question fits in nicely with the [SIB Swiss Institute of Bioinformatics course on Enzyme information in UniProt][1] [1]: https://w…
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