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126 results • Page
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Herald:
The Biostar Herald for Monday, May 13, 2024
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1 day ago by
Biostar
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164
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The Biostar Herald for Monday, May 06, 2024
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8 days ago by
Biostar
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153
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The Biostar Herald for Monday, April 29, 2024
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15 days ago by
Biostar
2.8k
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Herald:
The Biostar Herald for Tuesday, April 23, 2024
herald
updated 21 days ago by
Pierre Lindenbaum
161k • written 21 days ago by
Biostar
2.8k
6
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222
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Herald:
The Biostar Herald for Monday, April 15, 2024
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29 days ago by
Biostar
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190
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The Biostar Herald for Tuesday, April 09, 2024
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5 weeks ago by
Biostar
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207
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The Biostar Herald for Wednesday, April 03, 2024
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Biostar
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228
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The Biostar Herald for Monday, March 25, 2024
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7 weeks ago by
Biostar
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232
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The Biostar Herald for Monday, March 11, 2024
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9 weeks ago by
Biostar
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316
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The Biostar Herald for Monday, February 26, 2024
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11 weeks ago by
Biostar
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246
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The Biostar Herald for Tuesday, February 20, 2024
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275
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The Biostar Herald for Monday, February 12, 2024
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Biostar
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312
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Biostar
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300
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The Biostar Herald for Monday, January 15, 2024
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The Biostar Herald for Monday, January 08, 2024
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4 months ago by
Biostar
2.8k
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464
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Herald:
The Biostar Herald for Tuesday, December 19, 2023
herald
updated 4 months ago by
cmdcolin
★ 3.8k • written 4 months ago by
Biostar
2.8k
4
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377
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Herald:
The Biostar Herald for Monday, December 11, 2023
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5 months ago by
Biostar
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381
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The Biostar Herald for Monday, December 04, 2023
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Biostar
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386
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Herald:
The Biostar Herald for Monday, November 27, 2023
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Biostar
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424
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The Biostar Herald for Monday, November 20, 2023
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Biostar
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412
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Herald:
The Biostar Herald for Monday, November 13, 2023
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6 months ago by
Biostar
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439
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The Biostar Herald for Monday, November 06, 2023
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Biostar
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457
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The Biostar Herald for Monday, October 30, 2023
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6 months ago by
Biostar
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499
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Herald:
The Biostar Herald for Monday, October 23, 2023
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6 months ago by
Biostar
2.8k
3
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461
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Herald:
The Biostar Herald for Monday, October 16, 2023
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7 months ago by
Biostar
2.8k
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573
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Herald:
The Biostar Herald for Monday, October 09, 2023
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written 7 months ago by
Biostar
2.8k
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516
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Herald:
The Biostar Herald for Tuesday, September 26, 2023
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7 months ago by
Biostar
2.8k
4
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561
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The Biostar Herald for Wednesday, September 20, 2023
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7 months ago by
Biostar
2.8k
4
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506
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The Biostar Herald for Wednesday, September 06, 2023
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8 months ago by
Biostar
2.8k
4
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762
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Herald:
The Biostar Herald for Monday, August 28, 2023
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updated 8 months ago by
Jesse
▴ 770 • written 8 months ago by
Biostar
2.8k
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618
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Herald:
The Biostar Herald for Thursday, August 24, 2023
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8 months ago by
Biostar
2.8k
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696
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Herald:
The Biostar Herald for Wednesday, August 09, 2023
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9 months ago by
Biostar
2.8k
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807
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Herald:
The Biostar Herald for Wednesday, August 02, 2023
herald
9 months ago by
Biostar
2.8k
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1.1k
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Herald:
The Biostar Herald for Thursday, June 15, 2023
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11 months ago by
Biostar
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778
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Herald:
The Biostar Herald for Monday, June 05, 2023
herald
11 months ago by
Biostar
2.8k
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844
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Herald:
The Biostar Herald for Tuesday, May 23, 2023
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11 months ago by
Biostar
2.8k
3
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841
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Herald:
The Biostar Herald for Thursday, May 11, 2023
herald
12 months ago by
Biostar
2.8k
5
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840
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Herald:
The Biostar Herald for Monday, May 01, 2023
herald
updated 12 months ago by
cmdcolin
★ 3.8k • written 12 months ago by
Biostar
2.8k
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732
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Herald:
The Biostar Herald for Monday, April 24, 2023
herald
12 months ago by
Biostar
2.8k
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718
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Herald:
The Biostar Herald for Monday, April 17, 2023
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13 months ago by
Biostar
2.8k
3
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754
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Herald:
The Biostar Herald for Monday, April 10, 2023
herald
13 months ago by
Biostar
2.8k
5
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658
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Herald:
The Biostar Herald for Monday, April 03, 2023
herald
13 months ago by
Biostar
2.8k
2
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646
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Herald:
The Biostar Herald for Tuesday, March 28, 2023
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13 months ago by
Biostar
2.8k
2
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709
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Herald:
The Biostar Herald for Monday, March 13, 2023
herald
14 months ago by
Biostar
2.8k
2
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0
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671
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Herald:
The Biostar Herald for Tuesday, February 28, 2023
herald
14 months ago by
Biostar
2.8k
2
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699
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Herald:
The Biostar Herald for Monday, February 20, 2023
herald
14 months ago by
Biostar
2.8k
1
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726
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Herald:
The Biostar Herald for Wednesday, February 15, 2023
herald
15 months ago by
Biostar
2.8k
2
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708
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Herald:
The Biostar Herald for Monday, February 06, 2023
herald
15 months ago by
Biostar
2.8k
3
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632
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Herald:
The Biostar Herald for Monday, January 30, 2023
herald
15 months ago by
Biostar
2.8k
126 results • Page
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Recent Votes
The Biostar Handbook. A bioinformatics e-book for beginners.
The Biostar Handbook. A bioinformatics e-book for beginners.
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
What is Deepvariant default filtering values ?
Answer: Filtering Multi-sample VCF file for all except one Genotype
Answer: Alphaphold 3 pLDDT coloring scheme in chimerax?
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
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rj.rezwan
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matteo.levorato
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Palgrave
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Answer: Duplicated reads (IDs) from nanopore sequencing
by
marco.barr
▴ 110
Hi, I'm also working with ONT data and with dorado. From experience I tell you that some versions of MInKNOW have bad management of fast5 f…
Comment: Problem with Calling Variants from RNA-Seq data
by
Esraa
• 0
Yes, i specifically ran the RNA-seq best practices, and no i have not taken RNA editing into account considering this is not mentioned in t…
Comment: Problem with Calling Variants from RNA-Seq data
by
i.sudbery
19k
Have you accounted for A>I RNA editing?
Comment: Problem with Calling Variants from RNA-Seq data
by
Esraa
• 0
**My references** Genome: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/references/GRCh38/GCA_000001405.15_GRCh38_no_al…
Answer: Getting differential ChIP-seq peaks between conditions after calling consensus p
by
ATpoint
82k
This has formally been investiated by a reputable group here: https://academic.oup.com/nar/article/42/11/e95/1442937 IIRC they think tha…
Comment: RNA seq analysis
by
Jacek
▴ 10
Thank you so much Matthias this is really helpful, I got insight from this. Have a nice day
Answer: Differential Expression with limma: Contrast and Design Matrix, combinatorial ap
by
dariober
14k
> Is this a statistically valid approach to compare the impact of any bacterial exposure and genotype? At a glance, it seems fine to me…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
Pierre Lindenbaum
161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Answer: Filtering VCF files based on VAF giving incorrect results
by
Pierre Lindenbaum
161k
using vcfilterjdk: https://jvarkit.readthedocs.io/en/latest/VcfFilterJdk/ java -jar ${JVARKIT_DIST}/jvarkit.jar vcffilterjdk …
Comment: Applying the metacell2 algorithm using python
by
JACKY
▴ 140
I have one more question please. When reading the h5ad file at the very beginning, do I need to perform the usual scanpy normalization step…
Comment: Using Cutadapt to trim adapters from paired-end small RNA sequence data
by
melissa.joubert
• 0
Thank you! This was going to be my next option - to simply use the Read_1 libraries for all samples. Can I ask about the second option you…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
schmince
• 0
Thanks, that was exactly what i needed
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
by
Esraa
• 0
Thank you! I will try searching for this more and see if it would fit my analysis purposes.
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
by
Esraa
• 0
Thank you so much for answering! I actually found some studies doing it the way you mentioned. I ran the GATK best practices pipeline on t…
Comment: BWA alignment
by
a.alnawfal.1992
▴ 260
that's great, but i believe the issue is related to stdin rather than index
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