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13,538 results • Page
4 of 271
Sort: replies
Rank
Views
Votes
Replies
12
votes
22
replies
2.6k
views
Help with error in GATK variant calling
GATK
updated 11 months ago by
Ram
43k • written 11 months ago by
Chris
▴ 260
5
votes
22
replies
12k
views
sra toolkit program fastq-dump question.
sratoolkit
fastq-dump
updated 10 months ago by
Ram
43k • written 9.3 years ago by
jinhwa1112
▴ 10
9
votes
22
replies
9.7k
views
Tool:
BioLabDonkey - new Mac program for molecular biologists
software
biolabdonkey
9 months ago by
vytarasov
▴ 180
11
votes
22
replies
4.6k
views
7 follow
Which New Bioinformatics Related Tool Would You Appreciate The Most?
programming
updated 10 months ago by
Ram
43k • written 11.8 years ago by
Biomonika (Noolean)
3.2k
13
votes
22
replies
11k
views
SVA : Setting up the data from an ExpressionSet and applying sva function to extimate batches
sva
combat
batch-effect
updated 12 days ago by
Ram
43k • written 6.8 years ago by
lessismore
★ 1.3k
27
votes
22
replies
5.7k
views
8 follow
Forum:
Recommendations of Linux distros for beginners in bioinformatics
training
linux
updated 11 months ago by
Ram
43k • written 6.4 years ago by
ropolocan
▴ 810
0
votes
21
replies
1.1k
views
Expression analysis of LncRNA from RNA-seq data
expression
lncrna
11 weeks ago by
analyst
▴ 30
13
votes
21
replies
1.8k
views
Practical Haplotype Graph Paths
practical-haplotype-graph
PHG
updated 11 weeks ago by
pjb39
▴ 200 • written 5 months ago by
micah_k
▴ 10
81
votes
21
replies
43k
views
15 follow
How To Get Bed File Containing Exons Of Canonical Transcripts And Their Corresponding Gene Symbols
bed
transcript
ucsc
biomart
updated 7 months ago by
Joel Wallenius
▴ 210 • written 10.2 years ago by
pristanna
▴ 750
48
votes
21
replies
5.1k
views
9 follow
What Online Gene-Centric Resources Do You Use?
gene
database
updated 5 months ago by
Ram
43k • written 14.0 years ago by
Andrew Su
4.9k
15
votes
21
replies
5.6k
views
7 follow
alphafold online availability and use case
alphafold
structure
prediction
written 2.7 years ago by
gnmcsbnfrmtcsclb
▴ 70
38
votes
21
replies
19k
views
8 follow
Tool:
pybam - 100% python BAM reader
python
htspython
bam
pysam
updated 10 months ago by
Ram
43k • written 8.0 years ago by
John
13k
10
votes
21
replies
3.3k
views
How to interpret heatmap using plotheatmap from deeptools?
ATAC-seq
deeptools
8 months ago by
Chris
▴ 260
39
votes
21
replies
13k
views
10 follow
Forum:
Orientation of PE reads a review of --fr --ff and --rf meanings
RNA-Seq
updated 11 months ago by
Ram
43k • written 5.5 years ago by
Juke34
8.5k
27
votes
21
replies
38k
views
12 follow
Converting a VCF with SNPs and indels to BED format
next-gen
updated 6 months ago by
Axzd
▴ 70 • written 9.8 years ago by
onter
▴ 170
18
votes
21
replies
4.4k
views
Tool:
uQ - small binary FASTQ
Compression
FASTQ
updated 10 months ago by
Ram
43k • written 7.2 years ago by
John
13k
80
votes
21
replies
37k
views
17 follow
How to know that your RNA-seq is stranded or not?
RNA-Seq
updated 5 months ago by
kathryn.jacksonjones
• 0 • written 10.0 years ago by
M K
▴ 660
16
votes
21
replies
10.0k
views
7 follow
How to extract bigWig signal for a given bed file?
bigWig
updated 8 months ago by
Ram
43k • written 7.6 years ago by
Bioradical
▴ 60
5
votes
21
replies
2.9k
views
How to get my tool on Homebrew ?
homebrew
pipeline
updated 10 months ago by
Ram
43k • written 4.8 years ago by
Elephantdumbo
▴ 20
24
votes
21
replies
7.6k
views
9 follow
News:
Misunderstood parameter of NCBI BLAST
blast
alignment
updated 11 months ago by
Ram
43k • written 5.6 years ago by
Farbod
★ 3.4k
4
votes
21
replies
2.7k
views
Limma returned only positive logFC values
edgeR
differential-expression
deg
limma
10 months ago by
melissachua90
▴ 60
43
votes
21
replies
5.4k
views
9 follow
Helping Biostar Grow
biostars
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Eric Normandeau
11k
13
votes
21
replies
3.0k
views
6 follow
Aberrant splicing in bulk RNAseq
aberrant-splicing
transcript
isoform
exon
updated 11 months ago by
sbt_gvs
• 0 • written 14 months ago by
txema.heredia
▴ 110
60
votes
21
replies
3.8k
views
14 follow
Reproduce the article "The complete sequence of a human genome."
genome
assembly
updated 8 months ago by
Michael
54k • written 8 months ago by
sqshigg
▴ 60
12
votes
21
replies
6.7k
views
7 follow
Illumina HumanHT-12 V4.0 expression beadchip
R
lumi
LIMMA
updated 5 months ago by
Gordon Smyth
★ 7.1k • written 4.1 years ago by
zelda
▴ 50
52
votes
21
replies
49k
views
11 follow
Fastq Splitter For Paired End Reads
rna
updated 10 months ago by
Ram
43k • written 12.1 years ago by
Geparada
★ 1.5k
22
votes
21
replies
4.8k
views
7 follow
Quick Programming Challenge: Calculate Common And Unique Regions From A List Of Chromosome Segments
programming
updated 5 months ago by
Ram
43k • written 14.0 years ago by
Khader Shameer
18k
14
votes
21
replies
10k
views
7 follow
HOMER annotatePeaks.pl problem
RNA-Seq
ChIP-Seq
HOMER
updated 10 months ago by
Ram
43k • written 6.6 years ago by
Seq225
▴ 110
4
votes
21
replies
2.3k
views
6 follow
how to automate this process
python
plantCARE
updated 10 months ago by
Ram
43k • written 7.2 years ago by
ashish
▴ 680
23
votes
21
replies
8.9k
views
9 follow
fastest UMAP method
UMAP
R
updated 5 months ago by
Mensur Dlakic
★ 27k • written 4.5 years ago by
grey
▴ 30
12
votes
20
replies
1.3k
views
Help with gatk BaseRecalibrator
GATK
variant-calling
updated 4 months ago by
Ram
43k • written 4 months ago by
Chris
▴ 260
7
votes
20
replies
6.4k
views
7 follow
Repeat masked gtf files from ensembl
ensembl
RNA-Seq
genome
updated 18 days ago by
e.r.zakiev
▴ 200 • written 4.3 years ago by
kevin.stachelek
▴ 80
18
votes
20
replies
4.4k
views
6 follow
How to identify significant differentially expressed genes and gene regulatory networks from microarray data.
microarray
differential-gene-expression
updated 20 days ago by
Ram
43k • written 7.5 years ago by
morteza.mahmoudisaber
▴ 80
7
votes
20
replies
2.1k
views
Forum:
NGS RNA-Seq Analysis Pipeline Tophat vs STAR
STAR
RNA-Seq
TopHat
updated 11 months ago by
Ram
43k • written 3.3 years ago by
mikefeixu
▴ 10
14
votes
20
replies
6.7k
views
7 follow
Tool Recommendations For Human Genome Assembly
assembly
human-genome
updated 10 months ago by
Ram
43k • written 11.2 years ago by
Chris Cole
▴ 800
37
votes
20
replies
7.2k
views
14 follow
Online Bioinformatics Resources
online-resources
updated 5 months ago by
Ram
43k • written 14.0 years ago by
Eric Normandeau
11k
29
votes
20
replies
3.7k
views
Tool:
FastQt : a clone of FastQC in C++/Qt
fastqc
Cpp
fastq
Qt
updated 10 months ago by
Ram
43k • written 7.4 years ago by
sacha
★ 2.4k
16
votes
20
replies
14k
views
7 follow
Extracting allele, Genotype from VCF file
vcf
updated 10 months ago by
Ram
43k • written 6.0 years ago by
sukhjindermultani85
▴ 20
49
votes
20
replies
2.0k
views
10 follow
Forum:
First experiences matter
first-time
tolerance
updated 3 months ago by
Michael Love
★ 2.6k • written 3 months ago by
Mensur Dlakic
★ 27k
21
votes
20
replies
9.3k
views
11 follow
Laptops for bioinformatics
hardware
Laptops
updated 10 months ago by
LauferVA
4.2k • written 18 months ago by
tsomakiank
▴ 40
83
votes
20
replies
20k
views
17 follow
How Do Pathway Databases Compare?
pathway
database
subjective
updated 9 months ago by
Peter Karp
▴ 30 • written 13.5 years ago by
Shigeta
▴ 470
12
votes
20
replies
2.2k
views
Is there a single header file somewhere I can use to read bam?
cpp
bam
c
updated 11 months ago by
Ram
43k • written 5.5 years ago by
Click downvote
▴ 720
17
votes
20
replies
1.4k
views
What is the best way to compute genetic distances between FASTQ files?
genetic-distance
fastq
updated 6 months ago by
GenoMax
141k • written 6 months ago by
mikazon
▴ 10
28
votes
20
replies
21k
views
7 follow
how do I run repeat masker
repeatmasker
updated 3 months ago by
Andrzej Zielezinski
11k • written 8.4 years ago by
ksi216
▴ 80
2
votes
20
replies
2.4k
views
The number of SVs called by `vg call` is much smaller than the number of SVs in the VCF used to construct the graph
vg
7 months ago by
Maxine
▴ 40
15
votes
20
replies
1.7k
views
Bbtools callvariant multisample mode, + base recalibration
Bbtools
5 months ago by
Axzd
▴ 70
0
votes
20
replies
1.6k
views
Rockhoppper - Suspiciously low percentage of perfectly aligned reads
Rockhopper
RNA-seq
6 months ago by
langziv
▴ 50
1
vote
20
replies
1.6k
views
randomreads.sh only produces reads for chr1 to chr7
randomreads.sh
bbmap
updated 9 months ago by
GenoMax
141k • written 10 months ago by
berndmann
▴ 10
22
votes
20
replies
4.8k
views
Tool:
elPrep 4.0.0, a high-performance drop-in replacement tool for GATK4/Picard/SAMtools for processing SAM/BAM files
sam
bam
bqsr
updated 10 months ago by
Ram
43k • written 5.5 years ago by
Charlotte.Herzeel
▴ 150
0
votes
20
replies
1.6k
views
How can I obtain the DNA sequences of each CDS for several genbank files?
genbank
DNA
sequence
4 months ago by
Raphaëlle
• 0
13,538 results • Page
4 of 271
Recent Votes
The Biostar Herald for Monday, April 29, 2024
C: making a multi-fasta file out of 9 separate fasta file
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Comment: Landmark gene selection in L1000.
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thank you for reply, but i want some information for what microarray data are selected for L1000. thank you!
Answer: Why cd-hit-est not work when sequence identity threshold<0.95?
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The reason for your problem was most likely due to you relative complex data and too little system memory. For 20000-30000 transcriptome se…
Comment: Perfom a Gene Ontology Analysis from GO terms txt file
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Your table should look like this (GO terms): ``` geneid GOid Zm00001eb000010 GO:0003690;GO:0003727;GO:0019843;GO:0005739 Zm00001eb000020 G…
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Thank u for your reply. The problem is that I used the genome and gene annotation from that webpage, not ensemble or ncbi, so I have to use…
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Hello, To perform functional enrichment analysis there are packages such as topGO or clusterProfiler that can work very well. Lately I've …
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The anti-diagonal band does suggest some fraction of genotypes are strand-flipped - probably G/C or A/T variants.
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Please do not paste screenshots of plain text content, it is counterproductive. You can copy paste the content directly here (using the cod…
Comment: Extract protein sequence
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Thank you! I need this for eukaryotic organism and known protein sequences, but I guess seqkit would work well!
Comment: Landmark gene selection in L1000.
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Paper referred to in question: https://pubmed.ncbi.nlm.nih.gov/29195078/ > so I want to understand how you reduced the 12063 genes to 978…
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Protein attribute prediction
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@kevin May I know whether your comments and edits were mainly based on the fact that "Previously, [crazy] people had been using the origina…
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Wow, I was shocked at this AI answer that looks to be a good start for using UniProt. Sharing it in case it is useful. (It will work in ses…
Comment: NGS forensics: how to know if data is fabricated
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> Can you clarify what you mean by "100% of reads pass cutadapt, even > though 70% of reads contain adapters and get trimmed. The header o…
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If you have independent information available (e.g. genotype data for both individuals) then you *may* be able to assign reads based on the…
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