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121,934 results • Page
117 of 2439
Sort: Rank
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Votes
Replies
0
votes
3
replies
739
views
Software to separate reads from different individuals
software
development
nanopore
updated 17 months ago by
GenoMax
154k • written 17 months ago by
njornet
▴ 20
0
votes
2
replies
2.3k
views
How to update R on ubuntu
installation
update
R
apt-get
17 months ago by
Bosberg
▴ 50
4
votes
0
replies
823
views
Herald:
The Biostar Herald for Monday, April 29, 2024
herald
17 months ago by
Biostar
3.6k
1
vote
1
reply
542
views
Two references 1. genome 2. plasmid for bowtie2
WGS
BacterialGenomics
Alignment
updated 17 months ago by
GenoMax
154k • written 17 months ago by
RT
• 0
0
votes
1
reply
689
views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer
insertion
Pindel
variation
Delly
updated 17 months ago by
trausch
★ 2.0k • written 17 months ago by
zec018
• 0
0
votes
0
replies
572
views
LEfSe
LEfSe
17 months ago by
benkosta
• 0
1
vote
1
reply
573
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
updated 7 months ago by
sanjana B M
• 0 • written 17 months ago by
Sara
▴ 40
1
vote
4
replies
1.4k
views
Limma Analysis Agilent Microarray Data (GPL1708)
Microarray
Limma
Agilent
17 months ago by
hagl
▴ 20
0
votes
7
replies
1.3k
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
updated 16 months ago by
Mohamed Abderrahmane
▴ 20 • written 17 months ago by
matteo.levorato
• 0
0
votes
2
replies
788
views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression
DEG
model
17 months ago by
Lluís R.
★ 1.2k
1
vote
2
replies
719
views
How to solve DESeq2 Error in checkFullRank(modelMatrix)?
RNA-Seq
DESeq2
11 months ago by
DOBI
• 0
0
votes
0
replies
405
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 16 months ago by
Ram
45k • written 17 months ago by
atharvakarkare14
▴ 40
8
votes
16
replies
2.9k
views
How many reads for WGS Sequencing?
Bacterial-Genomics
WGS
11 months ago by
RT
• 0
0
votes
2
replies
645
views
What should I consider as FASTA for dataset?
PDB
FASTA
17 months ago by
Nafi
• 0
39
votes
24
replies
6.1k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 17 months ago by
i.sudbery
22k • written 17 months ago by
noodle
▴ 650
0
votes
0
replies
874
views
Differential accessibility using DiffBinf
diffbind
17 months ago by
shlo12
▴ 20
2
votes
2
replies
1.2k
views
Can I merge Hi-C fastq files from different lanes?
GenomeAssembly
BWA-MEM2
Hi-C
updated 17 months ago by
GenoMax
154k • written 17 months ago by
Winter
• 0
2
votes
7
replies
3.2k
views
6 follow
Differential Expression using Isoseq-supplemented reference transcriptome
RNA-Seq
Salmon
Isoseq
updated 17 months ago by
Gordon Smyth
★ 8.3k • written 2.1 years ago by
Calum
▴ 10
0
votes
1
reply
650
views
Finding batch and outlayers
Pca
updated 17 months ago by
mbyvcm
▴ 480 • written 17 months ago by
Tigran
• 0
2
votes
2
replies
770
views
PDB related issue
rcsb
pdb
updated 17 months ago by
noodle
▴ 650 • written 17 months ago by
Nafi
• 0
0
votes
0
replies
392
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annotation
17 months ago by
Physalia-courses
★ 2.6k
0
votes
8
replies
2.2k
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 17 months ago by
LauferVA
4.8k • written 17 months ago by
jinyu
▴ 10
0
votes
9
replies
4.2k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 17 months ago by
Ram
45k • written 2.1 years ago by
Gio
▴ 10
4
votes
5
replies
1.9k
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
17 months ago by
ashaneev07
▴ 50
1
vote
2
replies
898
views
Downloading full alignments from Pfam
pfam
17 months ago by
bef1
• 0
0
votes
1
reply
1.2k
views
Can I run cellassign on samples independently if there is batch effect present?
RNA-Seq
R
cellassign
batch-effect
updated 17 months ago by
Francesco
▴ 20 • written 4.7 years ago by
gt
▴ 30
5
votes
2
replies
1.2k
views
ChIP-seq datasets: input samples omitted?
ChIP-seq
Normalization
NGS
updated 17 months ago by
i.sudbery
22k • written 17 months ago by
RelativeOptics
▴ 40
0
votes
0
replies
351
views
adjusting for confounders in LMER in R
confounders
LMER
R
updated 17 months ago by
dariober
15k • written 17 months ago by
rene.j.erhardt
▴ 30
0
votes
0
replies
407
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
17 months ago by
tnminh89
▴ 10
0
votes
0
replies
485
views
Filter low express genes in microarray data
microarray
17 months ago by
Chris
▴ 360
3
votes
3
replies
1.5k
views
absolute path for symbolic links in Snakefile
Snakemake
updated 16 months ago by
Jesse
▴ 880 • written 17 months ago by
yifangt86
▴ 60
2
votes
2
replies
875
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 17 months ago by
Jesse
▴ 880 • written 17 months ago by
Broccoli
• 0
4
votes
3
replies
2.2k
views
Source other conda environments in a nextflow pipeline when nextflow itself is in a conda environment?
hpc
conda
nextflow
updated 17 months ago by
Arup Ghosh
3.4k • written 17 months ago by
chaco001
▴ 40
1
vote
3
replies
1.2k
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 17 months ago by
Mensur Dlakic
★ 30k • written 17 months ago by
O.rka
▴ 750
0
votes
2
replies
1.1k
views
Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
RNA-Seq
edgeR
17 months ago by
Guille
• 0
5
votes
1
reply
1.5k
views
How to use limma to find differentially expressed genes in response to a continuous variable
limma
voom
R
17 months ago by
pairedttest
▴ 40
3
votes
6
replies
3.7k
views
7 follow
DNA methylation preprocessing
SWAN
DNA
methylation
Funnorm
updated 17 months ago by
Ram
45k • written 3.8 years ago by
SYOSY
▴ 10
0
votes
0
replies
843
views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell
Spatial-Transcriptomics
17 months ago by
biocellbio
• 0
4
votes
11
replies
2.6k
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
16 months ago by
J
▴ 10
4
votes
6
replies
2.1k
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 17 months ago by
dsull
★ 7.7k • written 17 months ago by
qudrat.nii
▴ 40
20
votes
11
replies
17k
views
10 follow
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated 17 months ago by
cmdcolin
★ 4.3k • written 12.2 years ago by
J.F.Jiang
▴ 930
3
votes
2
replies
1.4k
views
what is the purpose of indexing the reference genome (Kallisto)
indexing
Kallisto
updated 17 months ago by
dsull
★ 7.7k • written 17 months ago by
Aaliya
▴ 10
3
votes
0
replies
597
views
News:
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy
Generative-AI
scRNA
Machine-Learning
updated 17 months ago by
Ram
45k • written 17 months ago by
Claire Watson
▴ 60
0
votes
2
replies
848
views
Rare Disease Variant Pathway Analysis
Pathway-analysis
updated 17 months ago by
Ram
45k • written 17 months ago by
The_PyPanda
▴ 10
0
votes
0
replies
537
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
17 months ago by
HarperReed
▴ 10
1
vote
0
replies
459
views
Simulation of label-free bottom-up proteomics expression dataset
label-free
bottom-up
lc-ms
proteomics
17 months ago by
KABILAN
▴ 130
0
votes
0
replies
437
views
Running Phylogenetic Analysis With NCBI Genome
population-genetics
phylogenetic
updated 17 months ago by
Ram
45k • written 17 months ago by
SineWave
• 0
0
votes
0
replies
340
views
RNA-seq: full length gene
RNA-seq
updated 17 months ago by
Ram
45k • written 17 months ago by
Nargis
• 0
1
vote
7
replies
2.0k
views
gvcf joint calling
WES
GATK
VCF
gVCF
17 months ago by
zihanss
• 0
0
votes
0
replies
434
views
Haplotype Phased Assembly Contigs to Chromosome Annotations
Assembly
phased
Haplotype
Annotation
17 months ago by
turcoa1
• 0
121,934 results • Page
117 of 2439
Recent Votes
What happened to biomart.org
Answer: allele frequency in VCF
Understanding terms, specifically relating to GT:PL in a VCF file
Comment: Looking to learn practical bioinformatics
Answer: WGCNA package in R: dendogram plot error
Answer: Does this adapter content from fastqc to warrant trimming prior to alignment?
Answer: Does this adapter content from fastqc to warrant trimming prior to alignment?
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Recent Replies
Answer: Linear regression vs DESeq2 models for DEG analysis
by
swbarnes2
15k
DE genes in bulk RNASeq is what DESeq2 was made for, so why wouldn't you use it? RPKM is not an appropriate normalization method here. M…
Comment: What happened to biomart.org
by
Jeremy Leipzig
23k
same with geuvadis.org
Comment: real time PCR data analysis
by
Gordon Smyth
★ 8.3k
Are you doing qPCR for one gene or for several genes?
Comment: protein interaction prediction
by
Fatemeh
▴ 50
Thanks very much for your help. I need to try it.
Comment: real time PCR data analysis
by
Fatemeh
▴ 50
Thanks a lot for the link. The problem is that with this repeated measures, if you put the data from different donors in different rows, fo…
Answer: What happened to biomart.org
by
GenoMax
154k
Looks like EBI let the domain registration expire. The domain was picked up by someone else and turned into the site OP mentions. There use…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
GenoMax
154k
> I want to reconstruct the assembly using the pacbio reads only. Is there a paper associated with this data? If the original publication/…
Comment: real time PCR data analysis
by
ATpoint
89k
I think the keyword to go after here is repeated measures https://www.graphpad.com/guides/prism/latest/statistics/repeated_measures.htm
Answer: What happened to biomart.org
by
ATpoint
89k
Maybe I am missing sth because I've never used the website but only the API and R interface, but I think the website has always been https:…
Comment: protein interaction prediction
by
Fatemeh
▴ 50
It is most probably binding to a protein. Its function is somehow known though, which is good . Thanks very much for the link. I will have …
Comment: Looking to learn practical bioinformatics
by
Upesh
▴ 20
ATpoint, you are absolutely bang on. In fact, my intention is not to switch careers but to connect with this field and build tools/systems …
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
• 0
I am trying to reproduce the assembly from the raw pacbio reads. I want to reconstruct the assembly using the pacbio reads only.
Comment: Does this adapter content from fastqc to warrant trimming prior to alignment?
by
ATpoint
89k
I would trim it. Two percent is not much but with WGS, say you have 400mio reads per sample or so, it's still millions of reads that theore…
Comment: Looking to learn practical bioinformatics
by
ATpoint
89k
> How do I connect the dots to a grand vision of drug discovery, DNA analysis, disease etc. Despite that computational-driven data analys…
Comment: Looking to learn practical bioinformatics
by
Upesh
▴ 20
Thank you, genomax, for the recommendations! Very helpful!
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