updated 12 hours ago by
dario.garvan
▴
520
•
written 7.2 years ago by
d-cameron
★
2.9k
4
votes
5
replies
4.3k
views
1
vote
3
replies
795
views
updated 17 hours ago by
sansan_96
▴
90
•
written 2.7 years ago by
boymin2020
▴
80
2
votes
11
replies
620
views
1
vote
14
replies
602
views
3
votes
4
replies
335
views
4
votes
6
replies
324
views
3
votes
7
replies
315
views
updated 5 hours ago by
DGTool
▴
20
•
written 23 hours ago by
Gabriel R.
★
2.9k
1
vote
3
replies
268
views
1
vote
5
replies
256
views
21 hours ago by
kl
▴
10
3
votes
4
replies
253
views
0
votes
4
replies
246
views
0
votes
4
replies
244
views
0
votes
4
replies
227
views
4 hours ago by
kilcdincer
▴
10
1
vote
5
replies
227
views
updated 13 hours ago by
Ram
43k
•
written 1 day ago by
manuelmourato25
•
0
1
vote
2
replies
222
views
1
vote
4
replies
215
views
0
votes
3
replies
209
views
updated 4 hours ago by
Pierre Lindenbaum
161k
•
written 1 day ago by
saifulislam99121
•
0
2
votes
3
replies
203
views
4
votes
3
replies
194
views
1
vote
1
reply
184
views
updated 16 hours ago by
Jordan M Eizenga
▴
460
•
written 11 days ago by
sarumonsus
▴
10
2
votes
2
replies
180
views
updated 21 hours ago by
Ram
43k
•
written 1 day ago by
jsmith120f
•
0
2
votes
2
replies
174
views
updated 16 hours ago by
Ram
43k
•
written 18 hours ago by
txema.heredia
▴
130
3
votes
3
replies
171
views
0
votes
1
reply
146
views
1
vote
1
reply
143
views
0
votes
1
reply
139
views
1
vote
1
reply
129
views
updated 8 hours ago by
Nyksubuz
▴
20
•
written 1 day ago by
mirwa.zidi93
•
0
0
votes
1
reply
127
views
0
votes
2
replies
126
views
updated 4 hours ago by
Pierre Lindenbaum
161k
•
written 10 hours ago by
melissachua90
▴
70
0
votes
1
reply
125
views
0
votes
1
reply
124
views
0
votes
1
reply
115
views
updated 1 hour ago by
GenoMax
142k
•
written 9 hours ago by
huxiangyulove
•
0
0
votes
1
reply
94
views
updated 4 hours ago by
txema.heredia
▴
130
•
written 12 hours ago by
Ngrin
•
0
0
votes
0
replies
82
views
updated 13 hours ago by
Ram
43k
•
written 20 hours ago by
carlopecoraro2
★
2.5k
0
votes
1
reply
79
views
0
votes
7
replies
74
views
0
votes
0
replies
76
views
0
votes
0
replies
75
views
0
votes
0
replies
67
views
18 hours ago by
sainavyav22
•
0
0
votes
0
replies
64
views
0
votes
0
replies
44
views
0
votes
1
reply
42
views
0
votes
0
replies
29
views
Recent Votes
Recent Locations •
All
Spain, just now
South Korea, just now
Bologna, 1 minute ago
India, 2 minutes ago
Budapest, 3 minutes ago
Belgium, 4 minutes ago
Lebanon, 4 minutes ago
Recent Awards •
All
Popular Question to
ashkan
▴
160
Popular Question to
Nyksubuz
▴
20
Popular Question to
Govardhan Anande
▴
150
Popular Question to
Lhl
▴
760
Recent Replies
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ATpoint
82k
Yes, but this is what I am saying: GAPDH in human has at least 6 annotated transcripts. Have you looked at all of them? Maybe that particul…
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴
160
@atpoint these are from PBMC. no they are different genes. for example ENST00000229239.10 is GAPDH. in STAR I got a lot of reads aligned …
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴
160
@dariober: I have to use kallisto for our downstream pipeline.
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ATpoint
82k
Which celltype is this? Are these transcripts of the same gene, and of which gene?
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴
160
@atpoint the question is updated. the first command shows how the index is built.
Comment: Help! Reconstruction of locus, order contigs
by
dthorbur
★
2.0k
Is the *de novo* annotation required for each contig? Reconstructing homologous regions in many genomes can be tricky regardless, but is es…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴
20
You can have a look on my answer. I have post it below.
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴
20
Here is my script that can be used to calculate how much degree that different factors contribute to PCA variance (PC1 and PC2).
# …
Comment: Details on salmon index
by
Lorenzo
•
0
Thank you so much for the beautiful explanation. Just one more curiosity. So in the first versions Salmon utilized RapMap to index and then…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
dthorbur
★
2.0k
I'm a little confused about your experimental design. Are you making 45 different assemblies? Or are all the samples from the same individu…
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ATpoint
82k
You should be stating how you constructed the index, and include the actual lines for the problematic genes from the abundance files. Note …
Comment: zero TPM for many gene including housekeeping when using kallisto
by
dariober
14k
You could try [salmon](https://combine-lab.github.io/salmon/getting_started/) to see if the problem is with kallisto or with the pseudo-ali…
Comment: solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* err
by
GenoMax
142k
> INPUT FILE error: could not open input file /geneInfo.tab
Based on the error it appears that the input file you are providing could not …
Answer: How to handle duplicated genes in TCGA data?
by
txema.heredia
▴
130
Having duplicate gene symbols is pretty common. Why do you need to work with gene symbols? To compare them to external datasets? Or just fo…
Comment: Merge clusters in Seurat UMAP
by
kilcdincer
▴
10
It did not help either. But I got the answer [here][1]
Thank you!
[1]: https://github.com/satijalab/seurat/issues/8902
Traffic: 2174 users visited in the last hour
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by the
version 2.3.6
version 2.3.6