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175 results • Page
1 of 4
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Votes
Replies
38
votes
24
replies
2.0k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 6 days ago by
i.sudbery
19k • written 9 days ago by
noodle
▴ 580
29
votes
28
replies
34k
views
11 follow
Split Fastq Files Into Chunks Of 1M Reads
split
fastq
updated 4 days ago by
thomas.heigl.ibk
• 0 • written 12.8 years ago by
Bioscientist
★ 1.7k
16
votes
12
replies
7.4k
views
10 follow
how to split multi-fasta file into single fasta file named by header
genome
perl
python3
bash
python
updated 3 days ago by
rsieber
▴ 10 • written 3.1 years ago by
Kumar
▴ 120
10
votes
10
replies
617
views
High Malat-1 expression in single cell data
single-cell
updated 17 hours ago by
t.montserrat.ayuso
▴ 10 • written 7 days ago by
carolofharvest
▴ 30
9
votes
10
replies
514
views
6 follow
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 4 days ago by
Zamin Iqbal
▴ 20 • written 5 days ago by
nicole.kavanagh
• 0
5
votes
5
replies
587
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 3 days ago by
Mbofire
• 0 • written 12 days ago by
Ming Tommy Tang
★ 3.9k
5
votes
6
replies
525
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 6 days ago by
me
▴ 760 • written 7 days ago by
Mariana
▴ 40
5
votes
3
replies
283
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 6 days ago by
Lluís R.
★ 1.2k • written 6 days ago by
이민경[학생](대학원 융합의과학과)
• 0
5
votes
6
replies
1.8k
views
agilent human all exon sureselct v7 bed file
exon
human
bed
v7
agilent
all
sureselect
updated 1 day ago by
MiladAD
▴ 10 • written 24 months ago by
soheil
• 0
5
votes
4
replies
381
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
4 days ago by
Estevão
• 0
5
votes
5
replies
280
views
Problem with data downloaded from Short Reads Archive (SRA)
SRA
DADA2
metabarcoding
updated 4 days ago by
atharvakarkare14
▴ 30 • written 4 days ago by
Begonia_pavonina
▴ 150
4
votes
15
replies
1.6k
views
how to test for differential expression in samples where a global increase in gene expression is expected
edgeR
DESeq
Differential-Expression
RNA-Seq
updated 3 days ago by
Gordon Smyth
★ 7.1k • written 4 months ago by
raplayer
▴ 10
4
votes
6
replies
3.9k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 6 days ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
4
votes
6
replies
3.8k
views
How to interpret DEXseq results in therms of significance
DEXseq
RNA-Seq
exon
updated 15 hours ago by
Sara
▴ 30 • written 6.7 years ago by
Lila M
★ 1.2k
4
votes
1
reply
204
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
plink
filtering
independent
updated 21 hours ago by
zx8754
11k • written 2 days ago by
Jautis
▴ 560
4
votes
2
replies
234
views
GRCh38.gmap file
gnomix
gmap
2 days ago by
lorena9132
▴ 10
4
votes
9
replies
2.1k
views
6 follow
Same sequencing sample in multiple lanes. How to analyse it?
sequencing
bowtie2
alignment
samtools
ngs
updated 3 days ago by
ST
• 0 • written 2.2 years ago by
Federico
• 0
3
votes
5
replies
314
views
Converting CRAM to FastQ
GATK
samtools
cram
SamToFastq
fastq
3 days ago by
Maverick
▴ 10
3
votes
2
replies
385
views
Extract protein sequence
fasta
alignment
blast
6 days ago by
anna
▴ 20
3
votes
3
replies
330
views
What analysis suitable to identify similarly expressed genes between two samples (treated vs untreated). Contrary to DGE analysis,
Gene-Expression
RNA
NOISeq
DGE
updated 3 days ago by
ATpoint
82k • written 4 days ago by
alifafiq1
• 0
3
votes
4
replies
383
views
Design matrix Differential expression analysis
RNA-seq
Differential-expression
updated 7 hours ago by
Gordon Smyth
★ 7.1k • written 3 days ago by
SHN
▴ 40
3
votes
5
replies
273
views
Generating mpileup file using samtools
mpileup
samtools
updated 3 days ago by
Joe
21k • written 3 days ago by
Ruqaiya
• 0
3
votes
8
replies
6.6k
views
7 follow
GATK genomicsDBimport intervals for WGS
gatk
genomicsdbimport
updated 4 days ago by
Sd
• 0 • written 5.1 years ago by
Nicolas Rosewick
11k
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
1 day ago by
Ibrahim Tanyalcin
★ 1.2k
2
votes
1
reply
289
views
Force PLINK2 to neglect chrX as the sex chromosome
PLINK2
updated 3 days ago by
chrchang523
10k • written 6 days ago by
8armed
▴ 10
2
votes
2
replies
1.8k
views
Parametric or non-parametric tests for qPCR significance testing between treatments?
qPCR
statistical test
parametric
non-parametric
updated 3 days ago by
e.r.zakiev
▴ 210 • written 3.8 years ago by
n.anuragsharma
▴ 40
2
votes
2
replies
2.6k
views
Pindel Segmentation Fault Error
pindel
updated 2 days ago by
Ruqaiya
• 0 • written 10.2 years ago by
Yuelin
▴ 20
2
votes
3
replies
276
views
Help with choosing a model species for Augustus for a de novo assembled genome.
augustus
annotation
assembly
genome
updated 3 days ago by
dthorbur
★ 1.9k • written 3 days ago by
Vijith
▴ 30
2
votes
2
replies
211
views
Raw counts using stringtie
stringtie
RNA-seq
updated 3 days ago by
GenoMax
142k • written 3 days ago by
ahmad.sajad4541
• 0
2
votes
2
replies
275
views
p-value in CIBERSORT
CIBERSORT
p-value
5 days ago by
michelafrancesconi9
▴ 20
2
votes
2
replies
185
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
updated 16 hours ago by
GenoMax
142k • written 6 days ago by
Adyasha
• 0
2
votes
8
replies
474
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
10 hours ago by
Qroid
▴ 40
2
votes
4
replies
296
views
from row count to tpm
tpm
row-count
normalization
updated 6 days ago by
Ram
43k • written 14 days ago by
michelafrancesconi9
▴ 20
2
votes
2
replies
291
views
Association study using SNP data
Association
Allele
Parentage
SNP
1 day ago by
drajangirija
• 0
2
votes
3
replies
803
views
Issues with Mixture file when using CIBERSORTx
Deconvolution
CIBERSORTx
updated 2 days ago by
vjanve
• 0 • written 7 months ago by
mateomejias
• 0
2
votes
2
replies
202
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 6 days ago by
ATpoint
82k • written 6 days ago by
Sudip
• 0
2
votes
2
replies
219
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 2 days ago by
Ram
43k • written 3 days ago by
carolofharvest
▴ 30
2
votes
2
replies
199
views
STRING-DB API can't find my protein but I can find it when I go to the STRING-DB website directly
STRING-DB
protein
STRING-DB-API
1 day ago by
brandon
• 0
1
vote
1
reply
234
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 6 days ago by
Ram
43k • written 6 days ago by
Jonathan Yoou
▴ 60
1
vote
1
reply
176
views
Including plasmid in alignment
Bacteria
Transcriptomics
BOWTIE2
STAR
6 days ago by
heelpPlease
• 0
1
vote
3
replies
282
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 6 days ago by
GenoMax
142k • written 6 days ago by
jeffrey.maurer.informatics
• 0
1
vote
6
replies
345
views
Do I need to go back and filter my long-reads?
alignment
nanopore
filtering
QC
ONT
updated 3 days ago by
GenoMax
142k • written 21 days ago by
eebloom
▴ 80
1
vote
0
replies
189
views
News:
Landscape Genomics course in Switzerland
LFMM
Landscape-Genomics
Sambada
R
Local-Adaptation
4 days ago by
carlopecoraro2
★ 2.5k
1
vote
8
replies
483
views
Downsampling fastq file
downsample
fastq
6 days ago by
marco.barr
▴ 90
1
vote
2
replies
252
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
4 days ago by
rianna.collins
• 0
1
vote
5
replies
332
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
3 days ago by
Riccardo
▴ 10
1
vote
3
replies
239
views
Odd alignment question/finding
Alignment
updated 3 days ago by
barslmn
★ 2.1k • written 5 days ago by
poordumbsillyidiot
• 0
1
vote
7
replies
443
views
Downsampling long-read BAM files
nanopore
BAM
QC
ONT
downsampling
3 days ago by
eebloom
▴ 80
1
vote
3
replies
254
views
Bedtools merge minimum overlap?
bedtools
genomics
updated 4 days ago by
Alex Reynolds
35k • written 4 days ago by
SJP
• 0
1
vote
3
replies
282
views
Does comparing two different groups to a common third group introduce bias in the analysis?
DESEQ
RNAseq
updated 3 days ago by
ATpoint
82k • written 4 days ago by
Qi
• 0
175 results • Page
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Did you check where the `features.tsv.gz` file had Gene IDs or Ensembl IDs?
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Ah, yes this makes sense! I knew this was an issue with, say, using kraken2 on shotgun metagenomic reads, but I don't have a lot of experi…
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Thank you. Maybe it's best to confirm with the authors about how they're getting responder/non-responder labels. I'll do that now.
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If you sequenced a short hypervariable region, most of your sequence reads will not be able to be assigned to the species level. One possi…
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