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116,757 results • Page
3 of 2336
Sort: Rank
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0
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280
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News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
4 days ago by
David Langenberger
11k
0
votes
1
reply
184
views
Deseq2
Deseq2
updated 4 days ago by
Jack Tierney
▴ 360 • written 4 days ago by
Sudip
• 0
1
vote
1
reply
226
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 4 days ago by
Michael
54k • written 4 days ago by
Lissa Cruz Saavedra
• 0
5
votes
3
replies
275
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 4 days ago by
Lluís R.
★ 1.2k • written 4 days ago by
이민경[학생](대학원 융합의과학과)
• 0
2
votes
2
replies
196
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 4 days ago by
ATpoint
82k • written 4 days ago by
Sudip
• 0
1
vote
2
replies
225
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 4 days ago by
Ram
43k • written 4 days ago by
Ravita
• 0
0
votes
0
replies
112
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
4 days ago by
Adyasha
• 0
0
votes
0
replies
113
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
4 days ago by
fanglujing
▴ 60
0
votes
0
replies
132
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
4 days ago by
Jacob
• 0
0
votes
3
replies
743
views
Why cd-hit-est not work when sequence identity threshold<0.95?
genome
cluster
sequence
updated 4 days ago by
weidonglu
• 0 • written 21 months ago by
JZX
• 0
0
votes
4
replies
269
views
Perfom a Gene Ontology Analysis from GO terms txt file
RNA-Seq
GO
updated 4 days ago by
Ram
43k • written 4 days ago by
Hamtaro
▴ 50
0
votes
1
reply
181
views
Differential Accessibility
DiffBind
updated 4 days ago by
Ram
43k • written 4 days ago by
Shloka
• 0
0
votes
3
replies
282
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 4 days ago by
GenoMax
142k • written 5 days ago by
kim
• 0
3
votes
2
replies
377
views
Extract protein sequence
fasta
alignment
blast
4 days ago by
anna
▴ 20
3
votes
3
replies
323
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 5 days ago by
noodle
▴ 580 • written 5 days ago by
WUSCHEL
▴ 750
0
votes
1
reply
168
views
metagenomic virome quality assessment
viromics
metagenomics
updated 5 days ago by
Ram
43k • written 5 days ago by
Petchimuthu
• 0
3
votes
7
replies
342
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
5 days ago by
salias
• 0
0
votes
0
replies
123
views
Using limma in methylation EM-seq?
EM-seq
methylation
5 days ago by
Lluís R.
★ 1.2k
4
votes
7
replies
586
views
Very low RNA splicing rate for pulmonary AT2 cells
RNA-velocity
scVelo
scRNA-seq
splicing
5 days ago by
e.r.zakiev
▴ 210
0
votes
0
replies
124
views
Synteny analysis
bacterial
synteny
genome
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Namil
• 0
0
votes
4
replies
258
views
Genbank File Format
gbkformat
4 days ago by
alenew.am
• 0
0
votes
5
replies
418
views
How should I make kallisto indexes?
kallisto
updated 5 days ago by
dsull
★ 6.0k • written 19 days ago by
bioinfo
▴ 150
0
votes
0
replies
226
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
5 days ago by
SSSJec
• 0
0
votes
3
replies
216
views
Software to separate reads from different individuals
software
development
nanopore
updated 5 days ago by
GenoMax
142k • written 5 days ago by
njornet
▴ 20
0
votes
0
replies
93
views
Seeking Guidance on Identifying Mutations in DARs from ATAC Data in Cancer Genomes
Genomics
Bioinformatics
ATACseq
CancerResearch
5 days ago by
David
• 0
0
votes
2
replies
224
views
How to update R on ubuntu
installation
update
R
apt-get
5 days ago by
Bosberg
▴ 50
4
votes
0
replies
134
views
Herald:
The Biostar Herald for Monday, April 29, 2024
herald
5 days ago by
Biostar
2.7k
1
vote
1
reply
144
views
Two references 1. genome 2. plasmid for bowtie2
WGS
BacterialGenomics
Alignment
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Ruqaiya
• 0
0
votes
1
reply
274
views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer
insertion
Pindel
variation
Delly
updated 5 days ago by
trausch
★ 1.9k • written 22 days ago by
zec018
• 0
0
votes
0
replies
107
views
LEfSe
LEfSe
5 days ago by
benkosta
• 0
0
votes
0
replies
89
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
5 days ago by
Sara
▴ 30
1
vote
4
replies
395
views
Limma Analysis Agilent Microarray Data (GPL1708)
Microarray
Limma
Agilent
5 days ago by
hagl
▴ 10
0
votes
5
replies
294
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
updated 1 day ago by
Mohamed Abderrahmane
▴ 20 • written 5 days ago by
matteo.levorato
• 0
0
votes
2
replies
158
views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression
DEG
model
5 days ago by
Lluís R.
★ 1.2k
0
votes
1
reply
145
views
How to solve DESeq2 Error in checkFullRank(modelMatrix)?
RNA-Seq
DESeq2
updated 5 days ago by
i.sudbery
19k • written 5 days ago by
DOBI
• 0
0
votes
0
replies
99
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass
Bioinformatics
spectrometry
Proteins
5 days ago by
atharvakarkare14
▴ 30
7
votes
16
replies
724
views
How many reads for WGS Sequencing?
WGS
Bacterial-Genomics
5 days ago by
Ruqaiya
• 0
0
votes
2
replies
203
views
What should I consider as FASTA for dataset?
PDB
FASTA
4 days ago by
Nafi
• 0
38
votes
24
replies
1.9k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 4 days ago by
i.sudbery
19k • written 7 days ago by
noodle
▴ 580
0
votes
0
replies
381
views
Differential accessibility using DiffBinf
diffbind
5 days ago by
Shloka
• 0
0
votes
0
replies
97
views
vg call vs vg surject
vg
variation
graphs
updated 5 days ago by
GenoMax
142k • written 5 days ago by
aliraza3119
• 0
0
votes
1
reply
137
views
Can I merge Hi-C fastq files from different lanes?
GenomeAssembly
BWA-MEM2
Hi-C
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Winter
• 0
2
votes
7
replies
1.3k
views
6 follow
Differential Expression using Isoseq-supplemented reference transcriptome
RNA-Seq
Salmon
Isoseq
updated 5 days ago by
Gordon Smyth
★ 7.1k • written 8 months ago by
Calum
▴ 10
0
votes
1
reply
211
views
Finding batch and outlayers
Pca
updated 5 days ago by
christopher medway
▴ 460 • written 5 days ago by
Tigran
• 0
2
votes
2
replies
204
views
PDB related issue
rcsb
pdb
updated 5 days ago by
noodle
▴ 580 • written 6 days ago by
Nafi
• 0
0
votes
0
replies
114
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annotation
5 days ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
436
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 4 days ago by
LauferVA
4.2k • written 6 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 5 days ago by
Ram
43k • written 8 months ago by
Gio
• 0
2
votes
5
replies
466
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
6 days ago by
ashaneev07
▴ 20
0
votes
1
reply
169
views
Downloading full alignments from Pfam
pfam
updated 6 days ago by
GenoMax
142k • written 6 days ago by
bef1
• 0
116,757 results • Page
3 of 2336
Recent Votes
Answer: Design matrix Differential expression analysis
A: extract dendrogram cluster from pheatmap
extract dendrogram cluster from pheatmap
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Comment: RNA velocity for smart-seq2 dataset
Answer: RNA velocity for smart-seq2 dataset
Answer: RNA velocity for smart-seq2 dataset
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Recent Replies
Comment: Design matrix Differential expression analysis
by
SHN
▴ 40
Thank you for your explanation. I am working on the cell lines and I am investigating the effect of the treatment on the expression level, …
Answer: Issues with Mixture file when using CIBERSORTx
by
vjanve
• 0
I ran into same issue of "duplicated gene symbol(s)": 1: In CIBERSORTxFractions(sigmatrix = sigmatrix, mixture = mixture, : 22292 dup…
Comment: creating batch colum for batch correction
by
Expert
▴ 10
Thank you for your response. These samples were collected from the same patient at different time points(day 0, 8 and 18) and these are ind…
Comment: creating batch colum for batch correction
by
ATpoint
82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
Comment: Pindel Segmentation Fault Error
by
Ruqaiya
• 0
This the tool still problematic?
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
Answer: Segmentation error while using a tool
by
Mensur Dlakic
★ 27k
Most likely you didn't do anything wrong. Going by your previous post that you have only 8 GB of RAM, the most likely reason is the lack of…
Comment: Segmentation error while using a tool
by
Thanujay S
• 0
Hey @Ruqaiya! Can you please give more details on why smalt is opted here? According to what I can see, the tool has become obsolete! Why …
Comment: Extracting mutation status from MAF files - TCGA
by
Thanujay S
• 0
Hey! Can you explain the question further? What have you tried?
Comment: Downloading older version of a tool
by
Ruqaiya
• 0
I tried the 2nd option only. I got the files of older version from the author but that version isn't working on my WSL, it's showing Segmen…
Comment: filtering before dada2
by
GenoMax
142k
> I encountered a significant decrease in the percentage of merged reads. You can check with `bbmerge.sh` from BBMap suite to see how many…
Comment: HCL database download
by
GenoMax
142k
Isn't the download link available above the plot: http://bis.zju.edu.cn/HCL/data/DGE/Adult-Transverse-Colon1_dge.txt.gz
Comment: fastq screen aligner no specified.
by
GenoMax
142k
You need to change this configuration file to point it to the location where the aligner executable can be found. So as an example followi…
Answer: Design matrix Differential expression analysis
by
Gordon Smyth
★ 7.1k
The expression levels do not change but the way that you have parametrized the expression levels does change. The two design matrices give…
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