COMBINE-lab salmon issues

COMBINE-lab / salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

https://combine-lab.github.io/salmon

GNU General Public License v3.0

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issues

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minScoreFraction

#972 hamzaaitabbou96 opened 1 week ago
0
Segmentation fault (core dumped) in bulk mode

#971 linyiD001 opened 3 weeks ago
0
Only select LLVM's libc++ for APPLE platforms.

#970 dslarm opened 1 month ago
0
Compilation with LLVM fails on Linux Rocky9/Ubuntu-22.04 - stdlib incorrectly chosen

#969 dslarm opened 1 month ago
0
Performance fix: don't let boost promote doubles to long doubles

#968 dslarm opened 1 month ago
0
Performance fix: don't let boost promote doubles to long doubles

#967 dslarm closed 1 month ago
1
Performance issue in use of boost::math::digamma on aarch64 Linux

#966 dslarm opened 1 month ago
2
stl_vector.h error

#965 fdecarpentier opened 1 month ago
0
ERROR: file [DRR016125_2.fastq.gz] does not appear to exist!

#963 ElToronjas opened 1 month ago
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The contents of the quant.genes.sf file and the quant.sf file are identical.

#962 happypiggyzjx opened 2 months ago
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Salmon quant with --recoverOrphans fails without warning

#961 Ecas9 opened 2 months ago
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How to use --read-geometry when specifying start and end of the both cDNA read pairs?

#960 pchaturvedi-takara opened 2 months ago
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Suggestions on --recoverOrphans

#959 LinearParadox opened 2 months ago
0
Best practice specifying library type for 10X data

#958 TereLaguinge opened 2 months ago
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ERROR: Version Server Response: Not Found; missing symbol called

#957 abhay030592 opened 2 months ago
0
How to use metagenomic MAGs to align metatranscriptomic reads to obtain TPMs.

#956 zx1474 opened 2 months ago
0
When using SALMON quant aux_info folder is empty

#955 cjos238 closed 2 months ago
1
Salmon fails to parse genes with ";" in their name

#954 J-Moravec closed 3 months ago
0
Salmon 1.10.3 build failure

#953 davidecarlson opened 3 months ago
0
Question about unassigned reads when running in alignment mode

#952 zxl124 opened 3 months ago
1
Doubts about running salmon after using STAR

#951 desmodus1984 opened 3 months ago
0
Some error was reported by the same command

#950 YIGUIz opened 3 months ago
0
Salmon alevin cannot work well with 10X 3' V4 data

#949 Cellecta opened 3 months ago
0
Identical insert size and SD

#948 jamespblloyd-uwa opened 3 months ago
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Dealing with Polycistronic transcripts

#947 AlvaroBernardino opened 4 months ago
1
Error about Transcript * appears in the reference but did not appear in the BAM

#946 YIGUIz opened 4 months ago
0
Error about Transcript * appears in the reference but did not appear in the BAM

#945 YIGUIz closed 4 months ago
0
How to read the order of the counts in the ambig_info.tsv

#944 callumparr opened 4 months ago
0
Salmon alevin errors out when cell barcode length is > 31 base pairs

#943 connersk opened 4 months ago
1
"Cannot add new cells" in Spatial Alevin Tutorial

#942 chrisquatjr closed 4 months ago
1
Error reading from the FASTA/Q stream. Minimum return code for left and right read was (-2).

#941 Hanjiangna opened 4 months ago
0
salmon quantmerge Error

#940 Quzelei opened 5 months ago
0
Salmon index issues

#939 aboridetayo opened 5 months ago
0
Clarity on how 'library_types' is inferred for meta_info.json

#938 pinin4fjords closed 5 months ago
4
Error: no valid ID found for GFF record

#937 duanshumeng opened 5 months ago
0
Problem installing salmon

#936 pwkooij opened 5 months ago
0
Indexing misses duplicates containing non-ATGC characters

#935 evanlawrence16 opened 5 months ago
0
soft masked decoy

#934 gjones3339 opened 5 months ago
0
problem with syntax of command line

#933 mocherry opened 5 months ago
0
Correct 2 typos

#932 freekvh closed 3 weeks ago
0
error when trying to follow tutorial

#931 mocherry closed 5 months ago
0
Issue with dedup UMI reads

#930 ismaeliglesia opened 6 months ago
0
Orphan recovery option in rare cases causes Salmon to quit abruptly without error

#929 gringer opened 6 months ago
0
Error (bug): version `GLIBC_PRIVATE' not found

#927 phylars closed 7 months ago
1
No bug - How to explain Salmon workflow simply ? (avoid mathematics-heavy explanation)

#926 deekshamisri opened 7 months ago
0
Documentation - more explanation of percent_mapped and metadata information please

#925 gringer closed 6 months ago
1
Counts in ONT data

#924 lubitelpospat opened 7 months ago
1
Segmentation core dumped - Salmon quant

#923 rugilemat opened 7 months ago
0
gene body coverage

#922 wangjiawen2013 opened 7 months ago
0
transcript with very small EffectiveLength

#921 steven-bioinfo opened 8 months ago
0