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686 results • Page
1 of 14
Sort: Votes
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Votes
Replies
76
votes
72
replies
20k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
26 days ago by
Kevin Blighe
88k
40
votes
10
replies
43k
views
8 follow
Batch effects : ComBat or removebatcheffects (limma package) ?
limma
sva
Combat
batch-effect
updated 21 days ago by
cwwong13
▴ 40 • written 6.8 years ago by
lessismore
★ 1.3k
38
votes
12
replies
31k
views
9 follow
How to systematically check if a bam file is truncated
Exomeseq
updated 3 days ago by
alanh
▴ 170 • written 7.1 years ago by
jonessara770
▴ 240
38
votes
24
replies
2.3k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 20 days ago by
i.sudbery
19k • written 23 days ago by
noodle
▴ 580
29
votes
28
replies
35k
views
11 follow
Split Fastq Files Into Chunks Of 1M Reads
split
fastq
updated 18 days ago by
thomas.heigl.ibk
• 0 • written 12.8 years ago by
Bioscientist
★ 1.7k
25
votes
11
replies
3.8k
views
6 follow
Forum:
Site Use Guidelines
meta
biostars
Guidelines
updated 27 days ago by
Ram
43k • written 14.6 years ago by
Istvan Albert
100k
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 24 days ago by
cmdcolin
★ 3.8k • written 10.8 years ago by
J.F.Jiang
▴ 920
16
votes
12
replies
7.5k
views
10 follow
how to split multi-fasta file into single fasta file named by header
genome
perl
python3
bash
python
updated 17 days ago by
rsieber
▴ 10 • written 3.2 years ago by
Kumar
▴ 120
14
votes
2
replies
7.1k
views
Trouble with Pilon installation
polishing
pilon
installation
updated 26 days ago by
Lissa Cruz Saavedra
• 0 • written 7.3 years ago by
Rox
★ 1.4k
13
votes
14
replies
992
views
High Malat-1 expression in single cell data
single-cell
updated 12 days ago by
t.montserrat.ayuso
▴ 40 • written 21 days ago by
carolofharvest
▴ 40
13
votes
17
replies
6.1k
views
9 follow
Blastn, need help to increase speed
RNA-Seq
blastn
blast+
updated 1 day ago by
m13113153781
• 0 • written 3.2 years ago by
chiachoong_leong93
▴ 20
11
votes
3
replies
370
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 12 days ago by
b.contreras.moreira
▴ 200 • written 13 days ago by
ijarne
• 0
10
votes
14
replies
828
views
6 follow
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 13 days ago by
GenoMax
142k • written 19 days ago by
nicole.kavanagh
• 0
10
votes
16
replies
17k
views
7 follow
How Can I Count Snps In My Final Vcf Files
SNP
updated 13 days ago by
Pierre Lindenbaum
161k • written 5.8 years ago by
mostafarafiepour
▴ 180
10
votes
6
replies
10k
views
6 follow
CDS vs cDNA vs transcript for mapping RNA-Seq reads
Assembly
rna-seq
alignment
updated 24 days ago by
Antonio R. Franco
★ 5.1k • written 6.1 years ago by
williamsbrian5064
▴ 520
9
votes
23
replies
9.8k
views
Tool:
BioLabDonkey - new Mac program for molecular biologists
software
biolabdonkey
9 days ago by
vytarasov
▴ 180
9
votes
7
replies
7.2k
views
Align paired and unpaired reads simultaneously using Bowtie2?
alignment
updated 9 days ago by
Ruqaiya
• 0 • written 5.7 years ago by
xiaozhongzhiping
▴ 20
9
votes
13
replies
4.8k
views
Custom Reference panel creation for data imputation from .vcf files
imputation
reference panel
updated 10 days ago by
analyst
▴ 50 • written 6.4 years ago by
David_emir
▴ 490
8
votes
5
replies
6.6k
views
ISCN annotation for SV/CN VCF files
SV
written 8 months ago by
a.beggs
▴ 60
8
votes
8
replies
776
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 25 days ago by
swbarnes2
14k • written 26 days ago by
Aaliya
▴ 10
8
votes
16
replies
1.2k
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 24 days ago by
bk11
★ 2.5k • written 10 weeks ago by
Sofia
• 0
7
votes
6
replies
616
views
Filtering sam or bam file with maximum matching region
crisper-edited
alignment
match
29 days ago by
analyst
▴ 50
7
votes
2
replies
336
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 27 days ago by
geneontologyhelp
▴ 400 • written 28 days ago by
catherine.teyssier
• 0
7
votes
14
replies
2.9k
views
6 follow
How to find tandem duplications pattern in a DNA sequence
Repeat
updated 21 hours ago by
micah
▴ 30 • written 3.1 years ago by
kumajis
• 0
7
votes
7
replies
6.0k
views
6 follow
How to know synonymous and non-synonymous SNPs from transcriptome sequencing
RNA-Seq
SNP
updated 25 days ago by
rohitsatyam102
▴ 870 • written 6.2 years ago by
smallfish
▴ 10
7
votes
1
reply
215
views
Tutorial:
removeBatchEffect explained using base R linear models
limma
effects
batch
removebatcheffects
updated 13 days ago by
dariober
14k • written 13 days ago by
nhaus
▴ 360
7
votes
16
replies
984
views
How many reads for WGS Sequencing?
WGS
Bacterial-Genomics
21 days ago by
Ruqaiya
• 0
6
votes
4
replies
453
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
18 days ago by
Estevão
▴ 10
6
votes
4
replies
13k
views
Trimmomatic: What is the difference between paired and unpaired output files in paired-end mode
trimmomatic
paired-end
updated 9 days ago by
Ruqaiya
• 0 • written 6.5 years ago by
dllopezr
▴ 130
6
votes
5
replies
2.3k
views
Tophat multiple or unique mapping criteria
RNA-Seq
updated 8 days ago by
Ruqaiya
• 0 • written 6.7 years ago by
maple964
• 0
6
votes
7
replies
414
views
Longest transcript variant per gene
transcript
longest
variant
orthofinder
8 days ago by
sansan_96
▴ 90
6
votes
3
replies
242
views
Interpretting IGV output
IGV
updated 28 days ago by
Carlo Yague
8.7k • written 28 days ago by
analyst
▴ 50
6
votes
5
replies
1.7k
views
How to calculate coverage of Nanopore long read data?
sequencing
coverage
5 days ago by
Arton
▴ 10
6
votes
4
replies
361
views
Details on salmon index
Salmon
updated 3 days ago by
Rob
6.6k • written 4 days ago by
Lorenzo
• 0
6
votes
2
replies
257
views
EdgeR - relationship between logFC and coefficients
differential-expression
r
edger
updated 10 days ago by
Gordon Smyth
★ 7.2k • written 11 days ago by
gBioStar5
▴ 10
6
votes
6
replies
1.8k
views
agilent human all exon sureselct v7 bed file
exon
human
bed
v7
agilent
all
sureselect
updated 15 days ago by
MiladAD
▴ 10 • written 2.0 years ago by
soheil
• 0
5
votes
4
replies
737
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
26 days ago by
kirillkirilenko
▴ 40
5
votes
7
replies
533
views
RNA seq analysis
DESeq
RNA-seq
5 days ago by
Jacek
▴ 20
5
votes
2
replies
449
views
Missing protein (VEGF-A) in String db
VGFA
stringdb
updated 25 days ago by
shalespringer
▴ 10 • written 3 months ago by
Phenylananin
▴ 20
5
votes
5
replies
365
views
Problem with data downloaded from Short Reads Archive (SRA)
SRA
DADA2
metabarcoding
updated 18 days ago by
atharvakarkare14
▴ 40 • written 18 days ago by
Begonia_pavonina
▴ 150
5
votes
3
replies
333
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 20 days ago by
Lluís R.
★ 1.2k • written 20 days ago by
이민경[학생](대학원 융합의과학과)
• 0
5
votes
5
replies
681
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 17 days ago by
Mbofire
• 0 • written 26 days ago by
Ming Tommy Tang
★ 3.9k
5
votes
6
replies
617
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 20 days ago by
me
▴ 760 • written 21 days ago by
Mariana
▴ 40
5
votes
2
replies
354
views
ChIP-seq datasets: input samples omitted?
ChIP-seq
Normalization
NGS
updated 21 days ago by
i.sudbery
19k • written 24 days ago by
vanbelj
▴ 40
5
votes
5
replies
351
views
Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
EGSEA
13 days ago by
Chris
▴ 280
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 12 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
4
votes
2
replies
290
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
12 days ago by
mnx0723
• 0
4
votes
2
replies
276
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 16 days ago by
Ram
43k • written 17 days ago by
carolofharvest
▴ 40
4
votes
6
replies
1.2k
views
Soft-clipping read ends based on read group
ancient
molecule
at
bam
DNA
RG
ends
clipping
damage
updated 12 days ago by
chenl
▴ 10 • written 2.5 years ago by
Martyna
• 0
4
votes
9
replies
2.2k
views
6 follow
Same sequencing sample in multiple lanes. How to analyse it?
sequencing
bowtie2
alignment
samtools
ngs
updated 17 days ago by
ST
• 0 • written 2.2 years ago by
Federico
• 0
686 results • Page
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Hello I have a quick question, I did as you said , and further added the traits, found the correlation among the modules and the traits us…
Comment: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
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Thank you so much Dave.
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The y axis represents the proportion of the total variance explained by each principal component. It's negative because the value (between…
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Please do a few simple Google searches before asking others for help.
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This post does not fit the theme of this forum.
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Hi, Congratulations but this is not LinkedIn, we are not a place to showcase your professional accomplishments. This does not fall under t…
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Many (most?) programs related to NGS data analysis produce non-deterministic output (unless they explicitly offer an option to produce dete…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
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For those samples it appears that raw data was not submitted. Just an assembly. $ esearch -db biosample -query SAMN08009548 | elink -…
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Great, thank you!
Comment: Filter Genome for Specific Sites
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This is unhelpful and doesn't answer my question.
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
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• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
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