Data Transformation: IsoSeq Annotation (Map + Collapse + SQANTI3) (Run #91)
Auto-created from analysis run #91 (isoseq-annotation pipeline)
Status
Completed
✓
Files
0
📎
Team
0
👥
Used in Studies
1
🔬
Assay Workflow:
PacBio IsoSeq sequencing of C57 mouse RNA (K1-50pM, Sequel I)
(sequencing assay → this data transformation)
Process Details
- Process ID
#183- Category
- Data_transformation
- Process Date
- March 5, 2026
- Created
- March 17, 2026 am 03:36
- Locked
- Yes
Used in 1 research study:
- Strain-specific cortex gene expression and isoform usage (C57BL/6 and DBA/2 Mouse Cortex Transcriptomics)
Workflow Inputs
upstream:
IsoSeq Clustering (Refine + Cluster) #81
| Input | File | Description |
|---|---|---|
| HQ consensus reads | clustered.hq.bam |
High-quality clustered isoforms from IsoSeq |
| Reference genome | GRCm39.primary_assembly.genome.fa |
Genome assembly FASTA |
| Gene annotation | annotation.gtf |
Reference gene annotation |
Output Files
View Full Results
| File | Format | Size |
|---|---|---|
mouse_c57_k1_50pm_junctions.txt |
text/plain | 9.9 MB |
collapsed.fasta |
text/plain | 24 MB |
mouse_c57_k1_50pm_corrected.fasta |
text/plain | 23.9 MB |
unknown_strand.gtf |
text/plain | 0 B |
mouse_c57_k1_50pm_corrected.genePred |
application/octet-stream | 2.7 MB |
mouse_c57_k1_50pm.params.txt |
text/plain | 818 B |
collapsed.flnc_count.txt |
text/plain | 110.4 KB |
collapsed.gff |
text/plain | 8.8 MB |
mouse_c57_k1_50pm_SQANTI3_report.html |
text/html | 6 MB |
mapped.bam.bai |
application/octet-stream | 1.3 MB |
mouse_c57_k1_50pm_corrected.faa |
text/plain | 4.5 MB |
collapsed.report.json |
application/json | 702 B |
collapsed.abundance.txt |
text/plain | 156.6 KB |
mapped.bam |
application/octet-stream | 9.1 MB |
mouse_c57_k1_50pm_corrected.gtf |
text/plain | 8.8 MB |
collapsed.group.txt |
text/plain | 305.1 KB |
refAnnotation_mouse_c57_k1_50pm.genePred |
application/octet-stream | 32.1 MB |
mouse_c57_k1_50pm_corrected.gtf.cds.gff |
text/plain | 18.6 MB |
mouse_c57_k1_50pm_classification.txt |
text/plain | 6.5 MB |
collapsed.read_stat.txt |
text/plain | 3.7 MB |
seq_bin_3 |
application/octet-stream | 7.5 MB |
seq_bin_1 |
application/octet-stream | 8.4 MB |
GMST_tmp.fnn |
application/octet-stream | 13 MB |
GeneMark_hmm.mod |
application/octet-stream | 190.6 KB |
seq_bin_2.mod |
application/octet-stream | 63.4 KB |
GMST_tmp |
application/octet-stream | 2.5 MB |
seq_bin_3.mod |
application/octet-stream | 63.4 KB |
seq_bin_1.mod |
application/octet-stream | 63.4 KB |
gms.log |
application/octet-stream | 16.8 KB |
GMST_tmp.faa |
text/plain | 4.6 MB |
seq_bin_2 |
application/octet-stream | 7.8 MB |
sj.rts.results.tsv |
text/tab-separated-values | 138 KB |
results_summary.json |
application/json | 2.4 KB |
Pipeline / Analysis Details
Analysis Run
- Run
- #91 — IsoSeq Annotation (Map + Collapse + SQANTI3)
- Status
- succeeded
- Completed
- 2026-03-05 09:22:10
- Pipeline
isoseq-annotation
Description
Auto-created from analysis run #91 (isoseq-annotation pipeline)
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Approval Status
Not Reviewed
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