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121,991 results • Page
12 of 2440
Sort: Rank
Rank
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Votes
Replies
2
votes
4
replies
1.5k
views
PRS calculation from two sample genotype results
prs
calculation
updated 3 months ago by
Muhammad
▴ 10 • written 9 months ago by
Arun
• 0
1
vote
16
replies
6.9k
views
PRS in UK Biobank - no covariate file and no phenotype file
UK
Biobank
PRS
4.1 years ago by
Jalil Sharif
▴ 80
40
votes
14
replies
3.9k
views
13 follow
Forum:
How do you estimate time to complete a project or task?
career
ngs
updated 3 months ago by
Анна
• 0 • written 8 months ago by
sviatoslav.kendall
▴ 990
0
votes
0
replies
773
views
News:
Introduction to Deep Learning for Biologists - online course, 3–7 November
MachineLearning
Python
deepLearning
ConvolutionalNeuralNetwork
3 months ago by
Physalia-courses
★ 2.6k
1
vote
2
replies
986
views
Running trajectory and velocity analysis with multiple samples
seurat
velocity
loom
trajectory
written 18 months ago by
gogeni5529
▴ 80
0
votes
1
reply
423
views
NMR modelling using xplor-NIH
peptide
xplor-NIH
NMR
3 months ago by
npk107
• 0
2
votes
5
replies
734
views
PCA interpretation
chip
seq
PCA
updated 3 months ago by
ATpoint
89k • written 3 months ago by
Irving
• 0
0
votes
0
replies
744
views
News:
course: Reproducibility in Bioinformatics - Only 2 seats remain!
Singularity
Git
Reproducibility
Docker
Snakemake
3 months ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
389
views
Annotate phylogenetic trees with bars or strips
otu
phylogenetics
R
taxonomy
metabarcoding
3 months ago by
Luca Arbore
▴ 10
3
votes
2
replies
639
views
Identifying Long Reads Spanning Chromosomal Breakpoints
ONT
samtools
Whole-Genome
updated 3 months ago by
trausch
★ 2.0k • written 3 months ago by
Noah
▴ 30
0
votes
2
replies
516
views
PAML output
PAML
Codeml
Selection
updated 3 months ago by
cfos4698
★ 1.2k • written 3 months ago by
Morjina
• 0
1
vote
2
replies
618
views
how to produce your own Nx plot
R
contiguity
plot
Nx
9 weeks ago by
Matteo Ungaro
▴ 130
1
vote
2
replies
598
views
Interpreting inconsistency between BLAST hits and phylogenetic clustering i
tree
phylogenetic
blast
3 months ago by
triplee0305
▴ 20
0
votes
0
replies
368
views
News:
Online course - Environmental Metagenomics - 13-17 October
Illumina
MAGs
Nanopore
Metagenomics
3 months ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
522
views
Deg Difference in Deseq2
Deg
updated 3 months ago by
swbarnes2
15k • written 3 months ago by
j.k.owaresat
• 0
0
votes
0
replies
412
views
No gene_trans_map file in CD-HIT-EST output
cd-hit-est
Trinity
RNAseq
Trinotate
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Olivia
• 0
0
votes
3
replies
610
views
MultiQC report - unique reads from sequence counts
fastQC
unique
reads
multiQC
3 months ago by
Rozita
▴ 40
2
votes
3
replies
591
views
NCBI Reference Genomes
genomes
ncbi
updated 3 months ago by
GenoMax
154k • written 3 months ago by
anna
▴ 70
0
votes
0
replies
371
views
GATK HaplotypeCaller missed variants in amplicon gene panel data
amplicon
gene_panel
haplotypecaller
variant_calling
gatk
3 months ago by
Sofya
• 0
0
votes
3
replies
902
views
Missing gem_classification.csv in Cell Ranger 9.0.0 Output Using cellranger multi with Combined Human-Mouse Reference
gem_classification
10x
cellranger_multi
combined_human-mouse_reference
updated 3 months ago by
GenoMax
154k • written 3 months ago by
tlallihuacan
• 0
0
votes
1
reply
534
views
Statistical analysis in a metagenomics study to validate biological differences
Metagenomics
analysis
updated 3 months ago by
chen
★ 2.5k • written 3 months ago by
Chijioke
• 0
1
vote
2
replies
757
views
Assembly issues
adapters
Assembly
Spades
updated 3 months ago by
chen
★ 2.5k • written 4 months ago by
anna
• 0
0
votes
5
replies
844
views
Trouble removing adapters from sequences using cutadapt
removal
cutadapt
adapter
primer
updated 3 months ago by
chen
★ 2.5k • written 3 months ago by
k.lagan
• 0
0
votes
5
replies
2.2k
views
Fastp
fastp
updated 3 months ago by
chen
★ 2.5k • written 3.5 years ago by
nishimalhotra2612
▴ 50
5
votes
10
replies
1.3k
views
Need help using ExpansionHunter
ExpansionHunter
3 months ago by
brianhill_nc
• 0
0
votes
0
replies
363
views
Comparing and plotting multinomial elastic net performance
ROC
elasticnet
plotting
glmnet
machinelearning
3 months ago by
bioinfo
• 0
2
votes
3
replies
656
views
How to add gene lable on GSEA plot
gseaplot
R
updated 3 months ago by
yura.grabovska
▴ 830 • written 3 months ago by
Emy Alade
▴ 20
0
votes
0
replies
349
views
Adding New Samples to Existing VCF Files graphtyper2
graphtyper2
existing_vcf
add_new_samples
3 months ago by
upadhyay.maulik
• 0
2
votes
5
replies
755
views
Seurat dims and QC questions
dims
updated 3 months ago by
1769mkc
★ 1.3k • written 3 months ago by
reddyornah
• 0
1
vote
1
reply
540
views
Duplication rate as reported by fastp.
fastp
duplication
RNA-seq
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Anjan
▴ 850
0
votes
2
replies
859
views
Is it appropriate to include singleton reads with paired-end datasets for low-coverage Anaplasma marginale comparative genome analysis?
assembly
analysis
coverage
genome
singletons
comparative
updated 3 months ago by
Mensur Dlakic
★ 30k • written 3 months ago by
ashiqullah024
• 0
0
votes
1
reply
563
views
ComBat for Multiple Batch Effects in Methylation Data (Chip, Row, Plate)
ComBat
methylation
EPIC
batch-correction
updated 3 months ago by
Basti
★ 2.1k • written 3 months ago by
Eliveri
▴ 350
0
votes
1
reply
435
views
Using a Seurat object to create a cellchat object
cellchat
3 months ago by
m.sharghi
• 0
0
votes
0
replies
375
views
WGCNA - High R2 and Mean connectivity at low soft power
WGCNA
3 months ago by
Leonard Barnabas
• 0
0
votes
0
replies
386
views
How do I combine or integrate my VDJ data for TCR and BCR with seurat object?
VDJ
scRepertoire
Seurat
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Jaber
▴ 30
0
votes
4
replies
2.1k
views
DGE analysis in Seurat using paired samples per donor ?
paired
seurat
dge
sample
12 weeks ago by
Picasa
▴ 690
2
votes
3
replies
752
views
RNA-seq: TPM batch effect correction
TPM
Combat
RNA-seq
updated 3 months ago by
rfran010
★ 1.7k • written 3 months ago by
Samuel
▴ 10
1
vote
3
replies
600
views
Error running pbrun fq2bam: No space left on device
disk
space
updated 3 months ago by
DBScan
▴ 530 • written 3 months ago by
Ritu
• 0
2
votes
3
replies
2.0k
views
How to find the annotation file for GPL16956 platform of Arraystar human lncRNA microarray V3 (Probe Name Version)?
annotation
lncRNA
microarray
probe
updated 3 months ago by
GenoMax
154k • written 5.3 years ago by
daphneolivia39
▴ 20
1
vote
5
replies
660
views
Statistics for bins
data
shotgun
updated 3 months ago by
GenoMax
154k • written 3 months ago by
shevch2009
▴ 20
5
votes
4
replies
690
views
twist exome panel analysis
twist
exome
updated 3 months ago by
GenoMax
154k • written 3 months ago by
1769mkc
★ 1.3k
0
votes
1
reply
378
views
Run hifiasm without error correction module?
hifiasm
assembly
wgs
nanopore
genomics
updated 3 months ago by
shelkmike
★ 1.8k • written 3 months ago by
Mark
▴ 60
1
vote
1
reply
390
views
PhageTerm Galaxy
error
phageterm
genomics
updated 3 months ago by
GenoMax
154k • written 3 months ago by
NIkita
• 0
1
vote
1
reply
375
views
Demultiplexing of snAtcSeq data using demuxlet gives an empty output
genotype
demuxlet
scatacseq
demultiplexing
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Bioiris
▴ 10
0
votes
1
reply
635
views
PbJelly Resume
Gap-filling
PacBio
PbJelly
written 16 months ago by
Lissa Cruz Saavedra
• 0
0
votes
0
replies
312
views
How do I figure out which chain a ligand is bound to using rcsb-api?
rcsb
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Priyal
▴ 10
1
vote
2
replies
596
views
Deseq2
PyDeseq2
Deseq2
updated 3 months ago by
GenoMax
154k • written 3 months ago by
sk_24
▴ 10
0
votes
0
replies
704
views
News:
In-Person NGS Epigenomics Workshop (November 3-5 in Munich, Germany)
ChIPSeq
BisulfiteSeq
ATACSeq
workshop
3 months ago by
ecSeq Bioinformatics
▴ 20
1
vote
0
replies
748
views
News:
Announcing a New Journal – Bioinformatics Methods and Applications – Now Open for Submissions
bioinformatics
3 months ago by
Wei
▴ 10
2
votes
1
reply
594
views
How to address conflicting circRNA expression results between public datasets and published studies? is it normal?
CicRNA-GEO
updated 3 months ago by
rfran010
★ 1.7k • written 3 months ago by
ParastooA
▴ 20
121,991 results • Page
12 of 2440
Recent Votes
A: Trimmomatic Error: Unable to detect quality encoding
A: Trimmomatic Error: Unable to detect quality encoding
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: TMM-Normalization
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Recent Replies
Comment: HIV NL4-3 transcriptome fasta
by
Ales
▴ 50
Hi, Wanted to update here that full transcriptome annotations for thousands of hiv genomes (including NL4-3) are now available at https://…
Answer: HIV NL4-3 transcriptome fasta
by
Ales
▴ 50
You can get full transcriptome annotation for the NL4-3 genomes: https://ccb.jhu.edu/HIV_Atlas/11676/AF324493.2 . Note the accession ID tho…
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I think you are wrongly assuming that we can help you with this without knowing what is the protein of interest. A general answer is that …
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Comment: GUI commercial software for 10x single cell gene expression analysis
by
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154k
Black box software has its cons but in instances like what OP needs that may be the only viable option. Their use limits reproducibility as…
Comment: downloading raw bam files from pacbio sequencer
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154k
Have you checked : https://www.pacb.com/connect/datasets/
Comment: TMM-Normalization
by
kalavattam
▴ 380
No, but a modified version of TMM does: “GeTMM.” See the paper [here](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-0…
Comment: Difficulty running FoldX in linux
by
strayeroliver
• 0
Responding to your answer. - I spent a lot of time formatting it just right, using the ``` methodology you mentioned. It looks very good o…
Comment: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
by
Phil Ewels
★ 1.5k
Found the docs: https://www.nextflow.io/docs/latest/process.html#multiple-input-files | Arity | Name pattern | Staged file names | |---|--…
Comment: Dorado in PowerShell on Windows
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jared.andrews07
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No more than running it on native Linux (as that's what WSL is at this point).
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8.0k
The quality of (modern, SUP basecalled, but certainly not fast basecalled) ONT sequences should be fine, especially for bacterial SNP call…
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What is the median length of raw reads and how many do you have? Has the data been basecalled with "high" or "super" accuracy? > I have …
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This question is about simulating reads and not read mapping.
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I have fun memories of month-long discussions with Illumina support about their GenomeStudio methylation module asking them to provide info…
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Try the references from the following publications. https://www.nature.com/articles/s41591-024-03150-z https://www.science.org/doi/10.112…
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