Dear all,
I am using DEXSeq to make splicing analysis on my data.
But I have a problem with the function read.HTSeqCounts: in the countfiles
argument, HTSeqCounts get in input a vector with the paths to exon count
files, but I have(as in DESeq package) a data.frame like this(computed by
my pipeline):

> head(countTable)
                       X498_A X479_D X480_D X509_B X524_A X515_A X496_B
X508_C
ENSMUSG00000000001:001    338    397    404    350    404    381    485
521
ENSMUSG00000000001:002     47     48     55     26     40     39     35
41
ENSMUSG00000000001:003     23     12     37     17     14     18     27
15
ENSMUSG00000000001:004     17      9     14     18      8      9     27
15
ENSMUSG00000000001:005     16     15     16      9     13     18     16
24
ENSMUSG00000000001:006     18     14     11     20     12     22     20
24
                       X517_D X478_D X497_A X533_D X487_B X516_D X531_B
X513_D
ENSMUSG00000000001:001    514    513    387    620    579    627    467
616
ENSMUSG00000000001:002     48     65     31     65     58     75     39
85
ENSMUSG00000000001:003     19     35     26     32     25     34     22
29
ENSMUSG00000000001:004     19     23      4     18     23     25     13
24
ENSMUSG00000000001:005     16     17     11     12     20     24      8
18
ENSMUSG00000000001:006     26     26      9     22     24     24     19
25
                       X507_A X505_C X506_C X525_C X514_A X546_C X547_C
X488_B
ENSMUSG00000000001:001    569    725    621    488    534    575    639
1037
ENSMUSG00000000001:002     52     66     57     56     42     70     63
89
ENSMUSG00000000001:003     30     40     33     26     19     24     27
62
ENSMUSG00000000001:004     23     20     25     22     22     18     19
30
ENSMUSG00000000001:005     22     19     18      7     20     19     21
35
ENSMUSG00000000001:006     22     25     19     21     29     25     19
32

My question is: Is there a way in which I can use function read.HTSeqCounts
with my table as input?
I used all DEXSeq python scripts to obtain my outputs.

Thanks in advance.
Regards,

Vincenzo

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